RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9125
(117 letters)
>gnl|CDD|187598 cd05339, 17beta-HSDXI-like_SDR_c, human 17-beta-hydroxysteroid
dehydrogenase XI-like, classical (c) SDRs.
17-beta-hydroxysteroid dehydrogenases (17betaHSD) are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. 17betaHSD type
XI, a classical SDR, preferentially converts
3alpha-adiol to androsterone but not numerous other
tested steroids. This subgroup of classical SDRs also
includes members identified as retinol dehydrogenases,
which convert retinol to retinal, a property that
overlaps with 17betaHSD activity. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 243
Score = 85.0 bits (211), Expect = 2e-21
Identities = 38/118 (32%), Positives = 64/118 (54%), Gaps = 4/118 (3%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
+I+ G+ S LL+ +++++TFE++ L+HFW + FL ML GH VT++SVAGL
Sbjct: 80 LINNAGVVSGKKLLELPDEEIEKTFEVNTLAHFWTTKAFLPDMLERNHGHIVTIASVAGL 139
Query: 62 TGQPHHTSMAASQFAVQGLSEALAQQL--WKKPNVHVTLVHIYPFLLSADLKSNIRLR 117
AS+ A G E+L +L + KP + TLV P+ ++ + ++
Sbjct: 140 ISPAGLADYCASKAAAVGFHESLRLELKAYGKPGIKTTLVC--PYFINTGMFQGVKTP 195
>gnl|CDD|212491 cd05233, SDR_c, classical (c) SDRs. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human prostaglandin dehydrogenase
(PGDH) numbering). In addition to the Tyr and Lys, there
is often an upstream Ser (Ser-138, PGDH numbering)
and/or an Asn (Asn-107, PGDH numbering) contributing to
the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 234
Score = 71.9 bits (177), Expect = 1e-16
Identities = 28/99 (28%), Positives = 50/99 (50%), Gaps = 1/99 (1%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
+++ G++ P L + + + + ++++ F L L M G G V +SSVAGL
Sbjct: 78 LVNNAGIARPGPLEELTDEDWDRVLDVNLTGVFLLTRAALPHMKKQGGGRIVNISSVAGL 137
Query: 62 TGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVH 100
P + AAS+ A++GL+ +LA +L + V V
Sbjct: 138 RPLPGQAAYAASKAALEGLTRSLALEL-APYGIRVNAVA 175
>gnl|CDD|187608 cd05350, SDR_c6, classical (c) SDR, subgroup 6. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a fairly well conserved typical
Gly-rich NAD-binding motif. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 239
Score = 68.1 bits (167), Expect = 4e-15
Identities = 33/100 (33%), Positives = 56/100 (56%), Gaps = 1/100 (1%)
Query: 1 MVIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG 60
+VI G+ +L D S + ++T + ++L +LE L + GRGH V +SSVA
Sbjct: 78 LVIINAGVGKGTSLGDLSFKAFRETIDTNLLGAAAILEAALPQFRAKGRGHLVLISSVAA 137
Query: 61 LTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVH 100
L G P + +AS+ A+ L+E+L + KK + VT+++
Sbjct: 138 LRGLPGAAAYSASKAALSSLAESLRYDV-KKRGIRVTVIN 176
>gnl|CDD|187643 cd08939, KDSR-like_SDR_c, 3-ketodihydrosphingosine reductase (KDSR)
and related proteins, classical (c) SDR. These proteins
include members identified as KDSR, ribitol type
dehydrogenase, and others. The group shows strong
conservation of the active site tetrad and glycine rich
NAD-binding motif of the classical SDRs. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 239
Score = 65.0 bits (159), Expect = 5e-14
Identities = 31/103 (30%), Positives = 57/103 (55%), Gaps = 3/103 (2%)
Query: 1 MVIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG 60
+V++C G+S P D + ++ ++ +++ + L M GH V +SS A
Sbjct: 85 LVVNCAGISIPGLFEDLTAEEFERGMDVNYFGSLNVAHAVLPLMKEQRPGHIVFVSSQAA 144
Query: 61 LTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYP 103
L G +++ S+FA++GL+E+L Q+L K N+ V++V YP
Sbjct: 145 LVGIYGYSAYCPSKFALRGLAESLRQEL-KPYNIRVSVV--YP 184
Score = 26.8 bits (60), Expect = 2.8
Identities = 8/22 (36%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 78 QGLSEALAQQLWKKPNVHVTLV 99
G+ +ALA++L K+ +V +V
Sbjct: 11 SGIGKALAKELVKE-GANVIIV 31
>gnl|CDD|187666 cd09806, type1_17beta-HSD-like_SDR_c, human estrogenic
17beta-hydroxysteroid dehydrogenase type 1 (type 1
17beta-HSD)-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. This classical SDR subgroup
includes human type 1 17beta-HSD, human retinol
dehydrogenase 8, zebrafish photoreceptor associated
retinol dehydrogenase type 2, and a chicken
ovary-specific 17beta-hydroxysteroid dehydrogenase. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 258
Score = 64.0 bits (156), Expect = 2e-13
Identities = 32/86 (37%), Positives = 47/86 (54%), Gaps = 1/86 (1%)
Query: 18 SMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAV 77
S + F+++V +L+ FL M G G + SSV GL G P + AS+FA+
Sbjct: 99 SEDAMASVFDVNVFGTVRMLQAFLPDMKRRGSGRILVTSSVGGLQGLPFNDVYCASKFAL 158
Query: 78 QGLSEALAQQLWKKPNVHVTLVHIYP 103
+GL E+LA QL NVH++L+ P
Sbjct: 159 EGLCESLAVQL-LPFNVHLSLIECGP 183
>gnl|CDD|187632 cd05374, 17beta-HSD-like_SDR_c, 17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs.
17beta-hydroxysteroid dehydrogenases are a group of
isozymes that catalyze activation and inactivation of
estrogen and androgens. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 63.4 bits (155), Expect = 2e-13
Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 1/103 (0%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
+++ G L + S+++V++ FE++V + FL M G G V +SSVAGL
Sbjct: 78 LVNNAGYGLFGPLEETSIEEVRELFEVNVFGPLRVTRAFLPLMRKQGSGRIVNVSSVAGL 137
Query: 62 TGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPF 104
P AS+ A++ LSE+L +L + VT++ P
Sbjct: 138 VPTPFLGPYCASKAALEALSESLRLEL-APFGIKVTIIEPGPV 179
>gnl|CDD|223377 COG0300, DltE, Short-chain dehydrogenases of various substrate
specificities [General function prediction only].
Length = 265
Score = 63.0 bits (154), Expect = 3e-13
Identities = 28/97 (28%), Positives = 50/97 (51%), Gaps = 1/97 (1%)
Query: 3 IHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLT 62
++ G + L+ S+ + ++ +L++L+ L + L M+ G GH + + S AGL
Sbjct: 89 VNNAGFGTFGPFLELSLDEEEEMIQLNILALTRLTKAVLPGMVERGAGHIINIGSAAGLI 148
Query: 63 GQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
P+ +A++ V SEAL ++L K V VT V
Sbjct: 149 PTPYMAVYSATKAFVLSFSEALREEL-KGTGVKVTAV 184
>gnl|CDD|187593 cd05332, 11beta-HSD1_like_SDR_c, 11beta-hydroxysteroid
dehydrogenase type 1 (11beta-HSD1)-like, classical (c)
SDRs. Human 11beta_HSD1 catalyzes the NADP(H)-dependent
interconversion of cortisone and cortisol. This subgroup
also includes human dehydrogenase/reductase SDR family
member 7C (DHRS7C) and DHRS7B. These proteins have the
GxxxGxG nucleotide binding motif and S-Y-K catalytic
triad characteristic of the SDRs, but have an atypical
C-terminal domain that contributes to homodimerization
contacts. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 59.9 bits (146), Expect = 5e-12
Identities = 30/99 (30%), Positives = 54/99 (54%), Gaps = 1/99 (1%)
Query: 1 MVIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG 60
++I+ G+S D S+ ++ E++ L + L ++ +G V +SS+AG
Sbjct: 84 ILINNAGISMRSLFHDTSIDVDRKIMEVNYFGPVALTKAALPHLIERSQGSIVVVSSIAG 143
Query: 61 LTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
G P T+ AAS+ A+QG ++L +L +PN+ VT+V
Sbjct: 144 KIGVPFRTAYAASKHALQGFFDSLRAEL-SEPNISVTVV 181
>gnl|CDD|212493 cd08932, HetN_like_SDR_c, HetN oxidoreductase-like, classical (c)
SDR. This subgroup includes Anabaena sp. strain PCC
7120 HetN, a putative oxidoreductase involved in
heterocyst differentiation, and related proteins. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 223
Score = 57.8 bits (140), Expect = 2e-11
Identities = 24/87 (27%), Positives = 46/87 (52%)
Query: 3 IHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLT 62
+H G+ P L + S +++ F ++V++ L L + +G G V L+S++G
Sbjct: 78 VHNAGIGRPTTLREGSDAELEAHFSINVIAPAELTRALLPALREAGSGRVVFLNSLSGKR 137
Query: 63 GQPHHTSMAASQFAVQGLSEALAQQLW 89
+ +AS+FA++ L+ AL Q+ W
Sbjct: 138 VLAGNAGYSASKFALRALAHALRQEGW 164
>gnl|CDD|236074 PRK07666, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 239
Score = 57.8 bits (140), Expect = 2e-11
Identities = 28/114 (24%), Positives = 59/114 (51%), Gaps = 3/114 (2%)
Query: 3 IHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLT 62
I+ G+S L+ + ++ +++++ ++ L M+ G + +SS AG
Sbjct: 89 INNAGISKFGKFLELDPAEWEKIIQVNLMGVYYATRAVLPSMIERQSGDIINISSTAGQK 148
Query: 63 GQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPFLLSADLKSNIRL 116
G ++ +AS+F V GL+E+L Q+ +K N+ VT + P ++ D+ ++ L
Sbjct: 149 GAAVTSAYSASKFGVLGLTESLMQE-VRKHNIRVTA--LTPSTVATDMAVDLGL 199
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 57.4 bits (139), Expect = 5e-11
Identities = 27/64 (42%), Positives = 42/64 (65%), Gaps = 2/64 (3%)
Query: 37 LEEFLTPMLSSGRG-HWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVH 95
+E F+ PM+++GRG H V +SS AGL P H + +AS+F ++GLSE L L + +
Sbjct: 117 IETFVPPMVAAGRGGHLVNVSSAAGLVALPWHAAYSASKFGLRGLSEVLRFDL-ARHGIG 175
Query: 96 VTLV 99
V++V
Sbjct: 176 VSVV 179
>gnl|CDD|226674 COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown
specificity [General function prediction only].
Length = 246
Score = 56.5 bits (137), Expect = 9e-11
Identities = 27/109 (24%), Positives = 44/109 (40%), Gaps = 3/109 (2%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPH 66
GL+ L + + + + +V L M+ GH + L S+AG P
Sbjct: 90 GLALGDPLDEADLDDWDRMIDTNVKGLLNGTRAVLPGMVERKSGHIINLGSIAGRYPYPG 149
Query: 67 HTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPFLLSADLKSNIR 115
A++ AV+ S L Q+L + VT+ I P L+ S +R
Sbjct: 150 GAVYGATKAAVRAFSLGLRQELAGT-GIRVTV--ISPGLVETTEFSTVR 195
>gnl|CDD|235726 PRK06181, PRK06181, short chain dehydrogenase; Provisional.
Length = 263
Score = 52.7 bits (127), Expect = 2e-09
Identities = 24/57 (42%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 43 PMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
P L + RG V +SS+AGLTG P + AAS+ A+ G ++L +L V VT+V
Sbjct: 123 PHLKASRGQIVVVSSLAGLTGVPTRSGYAASKHALHGFFDSLRIEL-ADDGVAVTVV 178
>gnl|CDD|181334 PRK08263, PRK08263, short chain dehydrogenase; Provisional.
Length = 275
Score = 52.3 bits (126), Expect = 3e-09
Identities = 22/80 (27%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 20 QKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQG 79
+ + + + W+ + L + GH + +SS+ G++ P AS++A++G
Sbjct: 99 SEARAQIDTNFFGALWVTQAVLPYLREQRSGHIIQISSIGGISAFPMSGIYHASKWALEG 158
Query: 80 LSEALAQQLWKKPNVHVTLV 99
+SEALAQ++ + + VTLV
Sbjct: 159 MSEALAQEV-AEFGIKVTLV 177
>gnl|CDD|180446 PRK06180, PRK06180, short chain dehydrogenase; Provisional.
Length = 277
Score = 52.2 bits (126), Expect = 3e-09
Identities = 26/79 (32%), Positives = 46/79 (58%), Gaps = 3/79 (3%)
Query: 22 VKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLS 81
+++ FE++V + + L M + RGH V ++S+ GL P S+FA++G+S
Sbjct: 102 MRRQFEVNVFGAVAMTKAVLPGMRARRRGHIVNITSMGGLITMPGIGYYCGSKFALEGIS 161
Query: 82 EALAQQLWKKP-NVHVTLV 99
E+LA+++ P +HVT V
Sbjct: 162 ESLAKEV--APFGIHVTAV 178
>gnl|CDD|223959 COG1028, FabG, Dehydrogenases with different specificities (related
to short-chain alcohol dehydrogenases) [Secondary
metabolites biosynthesis, transport, and catabolism /
General function prediction only].
Length = 251
Score = 51.7 bits (124), Expect = 5e-09
Identities = 26/88 (29%), Positives = 43/88 (48%), Gaps = 4/88 (4%)
Query: 13 ALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAA 72
L + + + + ++++L F L L M + V +SSVAGL G P + AA
Sbjct: 102 PLEELTEEDWDRVIDVNLLGAFLLTRAALPLMK---KQRIVNISSVAGLGGPPGQAAYAA 158
Query: 73 SQFAVQGLSEALAQQLWKKPNVHVTLVH 100
S+ A+ GL++ALA + + V V
Sbjct: 159 SKAALIGLTKALALE-LAPRGIRVNAVA 185
>gnl|CDD|235546 PRK05653, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 246
Score = 49.8 bits (120), Expect = 2e-08
Identities = 24/87 (27%), Positives = 49/87 (56%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
+++ G++ L S + + ++++ F ++ L PM+ + G V +SSV+G+
Sbjct: 86 LVNNAGITRDALLPRMSEEDWDRVIDVNLTGTFNVVRAALPPMIKARYGRIVNISSVSGV 145
Query: 62 TGQPHHTSMAASQFAVQGLSEALAQQL 88
TG P T+ +A++ V G ++ALA +L
Sbjct: 146 TGNPGQTNYSAAKAGVIGFTKALALEL 172
>gnl|CDD|187612 cd05354, SDR_c7, classical (c) SDR, subgroup 7. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also an active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 235
Score = 49.7 bits (119), Expect = 2e-08
Identities = 30/104 (28%), Positives = 51/104 (49%), Gaps = 2/104 (1%)
Query: 2 VIHCCGLSSPHALL-DRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG 60
VI+ G+ P LL + +++ +KQ +++V L + F + ++G G V L+SVA
Sbjct: 78 VINNAGVLKPATLLEEGALEALKQEMDVNVFGLLRLAQAFAPVLKANGGGAIVNLNSVAS 137
Query: 61 LTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPF 104
L P + +AS+ A L++ L +L V VH P
Sbjct: 138 LKNFPAMGTYSASKSAAYSLTQGLRAEL-AAQGTLVLSVHPGPI 180
>gnl|CDD|181298 PRK08219, PRK08219, short chain dehydrogenase; Provisional.
Length = 227
Score = 48.8 bits (117), Expect = 4e-08
Identities = 32/99 (32%), Positives = 57/99 (57%), Gaps = 3/99 (3%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
++H G++ + + ++ + + T E++V++ L L P L + GH V ++S AGL
Sbjct: 75 LVHNAGVADLGPVAESTVDEWRATLEVNVVAPAELTRLLL-PALRAAHGHVVFINSGAGL 133
Query: 62 TGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVH 100
P S AAS+FA++ L++AL ++ + NV VT VH
Sbjct: 134 RANPGWGSYAASKFALRALADALREE--EPGNVRVTSVH 170
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 48.5 bits (116), Expect = 7e-08
Identities = 25/82 (30%), Positives = 47/82 (57%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPH 66
G+ A++D ++ V++ FE +V L + F+ M++ G+G V SS+AGL P
Sbjct: 82 GIGEAGAVVDIPVELVRELFETNVFGPLELTQGFVRKMVARGKGKVVFTSSMAGLITGPF 141
Query: 67 HTSMAASQFAVQGLSEALAQQL 88
+ AS+ A++ ++EA+ +L
Sbjct: 142 TGAYCASKHALEAIAEAMHAEL 163
>gnl|CDD|187535 cd02266, SDR, Short-chain dehydrogenases/reductases (SDR). SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase (KR) domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 186
Score = 47.9 bits (114), Expect = 8e-08
Identities = 28/98 (28%), Positives = 48/98 (48%), Gaps = 1/98 (1%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
V+H + L+D + ++++ +V+ LLE M + G ++ +SSVAGL
Sbjct: 35 VVHNAAILDDGRLIDLTGSRIERAIRANVVGTRRLLEAARELMKAKRLGRFILISSVAGL 94
Query: 62 TGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
G P AAS+ A+ GL++ A + W + T V
Sbjct: 95 FGAPGLGGYAASKAALDGLAQQWASEGWGN-GLPATAV 131
>gnl|CDD|187600 cd05341, 3beta-17beta-HSD_like_SDR_c, 3beta17beta hydroxysteroid
dehydrogenase-like, classical (c) SDRs. This subgroup
includes members identified as 3beta17beta
hydroxysteroid dehydrogenase, 20beta hydroxysteroid
dehydrogenase, and R-alcohol dehydrogenase. These
proteins exhibit the canonical active site tetrad and
glycine rich NAD(P)-binding motif of the classical SDRs.
17beta-dehydrogenases are a group of isozymes that
catalyze activation and inactivation of estrogen and
androgens, and include members of the SDR family. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 247
Score = 47.8 bits (114), Expect = 1e-07
Identities = 22/95 (23%), Positives = 49/95 (51%), Gaps = 1/95 (1%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPH 66
G+ + + ++++ ++ ++++ F + PM +G G + +SS+ GL G P
Sbjct: 88 GILTGGTVETTTLEEWRRLLDINLTGVFLGTRAVIPPMKEAGGGSIINMSSIEGLVGDPA 147
Query: 67 HTSMAASQFAVQGLSEALAQQLWKKP-NVHVTLVH 100
+ AS+ AV+GL+++ A + + + V VH
Sbjct: 148 LAAYNASKGAVRGLTKSAALECATQGYGIRVNSVH 182
>gnl|CDD|181136 PRK07825, PRK07825, short chain dehydrogenase; Provisional.
Length = 273
Score = 47.2 bits (113), Expect = 2e-07
Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 44 MLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
M+ GRGH V ++S+AG P + AS+ AV G ++A +L + VHV++V
Sbjct: 124 MVPRGRGHVVNVASLAGKIPVPGMATYCASKHAVVGFTDAARLEL-RGTGVHVSVV 178
>gnl|CDD|183773 PRK12824, PRK12824, acetoacetyl-CoA reductase; Provisional.
Length = 245
Score = 47.1 bits (112), Expect = 2e-07
Identities = 21/79 (26%), Positives = 37/79 (46%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPH 66
G++ S Q+ ++ S F + + M G G + +SSV GL GQ
Sbjct: 89 GITRDSVFKRMSHQEWNDVINTNLNSVFNVTQPLFAAMCEQGYGRIINISSVNGLKGQFG 148
Query: 67 HTSMAASQFAVQGLSEALA 85
T+ +A++ + G ++ALA
Sbjct: 149 QTNYSAAKAGMIGFTKALA 167
>gnl|CDD|183775 PRK12826, PRK12826, 3-ketoacyl-(acyl-carrier-protein) reductase;
Reviewed.
Length = 251
Score = 46.8 bits (112), Expect = 3e-07
Identities = 22/88 (25%), Positives = 42/88 (47%), Gaps = 1/88 (1%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
++ G+ + ++ ++ ++++ F L + L ++ +G G V SSVAG
Sbjct: 87 LVANAGIFPLTPFAEMDDEQWERVIDVNLTGTFLLTQAALPALIRAGGGRIVLTSSVAGP 146
Query: 62 -TGQPHHTSMAASQFAVQGLSEALAQQL 88
G P AAS+ + G + ALA +L
Sbjct: 147 RVGYPGLAHYAASKAGLVGFTRALALEL 174
>gnl|CDD|183778 PRK12829, PRK12829, short chain dehydrogenase; Provisional.
Length = 264
Score = 46.6 bits (111), Expect = 3e-07
Identities = 28/96 (29%), Positives = 51/96 (53%), Gaps = 3/96 (3%)
Query: 7 GLSSPHA-LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWV-TLSSVAGLTGQ 64
G++ P + + + ++ +QT +++ F+ + + +SG G + LSSVAG G
Sbjct: 95 GIAGPTGGIDEITPEQWEQTLAVNLNGQFYFARAAVPLLKASGHGGVIIALSSVAGRLGY 154
Query: 65 PHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVH 100
P T AAS++AV GL ++LA +L + V +
Sbjct: 155 PGRTPYAASKWAVVGLVKSLAIELGPL-GIRVNAIL 189
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 46.6 bits (111), Expect = 4e-07
Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 45 LSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPF 104
G G ++ + S+ G QP+ + +AS+F ++G SEAL +L P++HV +YP
Sbjct: 131 KKQGHGIFINMISLGGFAAQPYAAAYSASKFGLRGFSEALRGELADHPDIHV--CDVYPA 188
Query: 105 LL 106
+
Sbjct: 189 FM 190
>gnl|CDD|187626 cd05368, DHRS6_like_SDR_c, human DHRS6-like, classical (c) SDRs.
Human DHRS6, and similar proteins. These proteins are
classical SDRs, with a canonical active site tetrad and
a close match to the typical Gly-rich NAD-binding motif.
Human DHRS6 is a cytosolic type 2 (R)-hydroxybutyrate
dehydrogenase, which catalyses the conversion of
(R)-hydroxybutyrate to acetoacetate. Also included in
this subgroup is Escherichia coli UcpA (upstream cys P).
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction. Note: removed :
needed to make this chiodl smaller when drew final
trees: rmeoved text form description: Other proteins in
this subgroup include Thermoplasma acidophilum
aldohexose dehydrogenase, which has high dehydrogenase
activity against D-mannose, Bacillus subtilis BacC
involved in the biosynthesis of the dipeptide bacilysin
and its antibiotic moiety anticapsin, Sphingomonas
paucimobilis strain B90 LinC, involved in the
degradation of hexachlorocyclohexane isomers...... P).
Length = 241
Score = 46.3 bits (110), Expect = 4e-07
Identities = 22/84 (26%), Positives = 42/84 (50%), Gaps = 1/84 (1%)
Query: 3 IHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG-L 61
+C G ++LD L+V S + +++ L ML+ G + +SSVA +
Sbjct: 75 FNCAGFVHHGSILDCEDDDWDFAMNLNVRSMYLMIKAVLPKMLARKDGSIINMSSVASSI 134
Query: 62 TGQPHHTSMAASQFAVQGLSEALA 85
G P+ + ++ AV GL++++A
Sbjct: 135 KGVPNRFVYSTTKAAVIGLTKSVA 158
>gnl|CDD|171820 PRK12936, PRK12936, 3-ketoacyl-(acyl-carrier-protein) reductase
NodG; Reviewed.
Length = 245
Score = 45.3 bits (107), Expect = 9e-07
Identities = 24/73 (32%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 27 ELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQ 86
E+++ + F L E PM+ G + ++SV G+TG P + AS+ + G S++LAQ
Sbjct: 109 EVNLTATFRLTRELTHPMMRRRYGRIINITSVVGVTGNPGQANYCASKAGMIGFSKSLAQ 168
Query: 87 QLWKKPNVHVTLV 99
++ + NV V V
Sbjct: 169 EIATR-NVTVNCV 180
>gnl|CDD|187594 cd05333, BKR_SDR_c, beta-Keto acyl carrier protein reductase (BKR),
involved in Type II FAS, classical (c) SDRs. This
subgroup includes the Escherichai coli K12 BKR, FabG.
BKR catalyzes the NADPH-dependent reduction of ACP in
the first reductive step of de novo fatty acid synthesis
(FAS). FAS consists of four elongation steps, which are
repeated to extend the fatty acid chain through the
addition of two-carbo units from malonyl acyl-carrier
protein (ACP): condensation, reduction, dehydration, and
a final reduction. Type II FAS, typical of plants and
many bacteria, maintains these activities on discrete
polypeptides, while type I FAS utilizes one or two
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet) NAD(P)(H) binding
region and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H) binding
pattern: TGxxxGxG in classical SDRs. Extended SDRs have
additional elements in the C-terminal region, and
typically have a TGXXGXXG cofactor binding motif.
Complex (multidomain) SDRs such as ketoreductase domains
of fatty acid synthase have a GGXGXXG NAD(P) binding
motif and an altered active site motif (YXXXN). Fungal
type type ketoacyl reductases have a TGXXXGX(1-2)G
NAD(P)-binding motif. Some atypical SDRs have lost
catalytic activity and/or have an unusual NAD(P) binding
motif and missing or unusual active site residues.
Reactions catalyzed within the SDR family include
isomerization, decarboxylation, epimerization, C=N bond
reduction, dehydratase activity, dehalogenation,
Enoyl-CoA reduction, and carbonyl-alcohol
oxidoreduction. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr-151 and
Lys-155, and well as Asn-111 (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 240
Score = 45.2 bits (108), Expect = 1e-06
Identities = 20/66 (30%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 34 FWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPN 93
F + + + M+ G + +SSV GL G P + AAS+ V G +++LA++L +
Sbjct: 113 FNVTQAVIRAMIKRRSGRIINISSVVGLIGNPGQANYAASKAGVIGFTKSLAKELASR-G 171
Query: 94 VHVTLV 99
+ V V
Sbjct: 172 ITVNAV 177
>gnl|CDD|180440 PRK06172, PRK06172, short chain dehydrogenase; Provisional.
Length = 253
Score = 45.1 bits (107), Expect = 1e-06
Identities = 29/90 (32%), Positives = 44/90 (48%), Gaps = 3/90 (3%)
Query: 11 PHALLDRSMQKVKQTFELSVLSHFWLLEEFLTP-MLSSGRGHWVTLSSVAGLTGQPHHTS 69
L + S + ++V WL ++ P ML+ G G V +SVAGL P +
Sbjct: 98 QGRLAEGSEAEFDAIMGVNV-KGVWLCMKYQIPLMLAQGGGAIVNTASVAGLGAAPKMSI 156
Query: 70 MAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
AAS+ AV GL+++ A + KK + V V
Sbjct: 157 YAASKHAVIGLTKSAAIEYAKK-GIRVNAV 185
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 45.2 bits (108), Expect = 1e-06
Identities = 20/55 (36%), Positives = 31/55 (56%)
Query: 34 FWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQL 88
F L + PM+ G + +SSV GL G P + AAS+ V G +++LA++L
Sbjct: 119 FNLTKAVARPMMKQRSGRIINISSVVGLMGNPGQANYAASKAGVIGFTKSLAREL 173
>gnl|CDD|187638 cd08933, RDH_SDR_c, retinal dehydrogenase-like, classical (c) SDR.
These classical SDRs includes members identified as
retinol dehydrogenases, which convert retinol to
retinal, a property that overlaps with 17betaHSD
activity. 17beta-dehydrogenases are a group of isozymes
that catalyze activation and inactivation of estrogen
and androgens, and include members of the short-chain
dehydrogenases/reductase family. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 261
Score = 44.8 bits (106), Expect = 1e-06
Identities = 24/85 (28%), Positives = 45/85 (52%), Gaps = 2/85 (2%)
Query: 2 VIHCCGLSSPHALLDR-SMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG 60
+++ G PH D S Q+ + L+++S+F L ++ P L +G+ + LSS+ G
Sbjct: 91 LVNNAGWHPPHQTTDETSAQEFRDLLNLNLISYF-LASKYALPHLRKSQGNIINLSSLVG 149
Query: 61 LTGQPHHTSMAASQFAVQGLSEALA 85
GQ A++ A+ +++ALA
Sbjct: 150 SIGQKQAAPYVATKGAITAMTKALA 174
>gnl|CDD|187639 cd08934, CAD_SDR_c, clavulanic acid dehydrogenase (CAD), classical
(c) SDR. CAD catalyzes the NADP-dependent reduction of
clavulanate-9-aldehyde to clavulanic acid, a
beta-lactamase inhibitor. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 243
Score = 44.5 bits (105), Expect = 2e-06
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 3/90 (3%)
Query: 26 FELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALA 85
+ ++L + L L +G V +SSVAG + A++F V SE L
Sbjct: 108 IDTNLLGLMYTTHAALPHHLLRNKGTIVNISSVAGRVAVRNSAVYNATKFGVNAFSEGLR 167
Query: 86 QQLWKKPNVHVTLVHIYPFLLSADLKSNIR 115
Q++ ++ V V + I P + +L+ +I
Sbjct: 168 QEVTER-GVRVVV--IEPGTVDTELRDHIT 194
>gnl|CDD|237218 PRK12825, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 249
Score = 44.1 bits (105), Expect = 2e-06
Identities = 26/84 (30%), Positives = 45/84 (53%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
+++ G+ L D S + + ++++ F LL + PM G V +SSVAGL
Sbjct: 88 LVNNAGIFEDKPLADMSDDEWDEVIDVNLSGVFHLLRAVVPPMRKQRGGRIVNISSVAGL 147
Query: 62 TGQPHHTSMAASQFAVQGLSEALA 85
G P ++ AA++ + GL++ALA
Sbjct: 148 PGWPGRSNYAAAKAGLVGLTKALA 171
>gnl|CDD|187648 cd08944, SDR_c12, classical (c) SDR, subgroup 12. These are
classical SDRs, with the canonical active site tetrad
and glycine-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 246
Score = 44.0 bits (104), Expect = 2e-06
Identities = 23/80 (28%), Positives = 40/80 (50%)
Query: 9 SSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHT 68
A++D + QT +++ F M++ G G V LSS+AG +G P +
Sbjct: 89 HLTPAIIDTDLAVWDQTMAINLRGTFLCCRHAAPRMIARGGGSIVNLSSIAGQSGDPGYG 148
Query: 69 SMAASQFAVQGLSEALAQQL 88
+ AS+ A++ L+ LA +L
Sbjct: 149 AYGASKAAIRNLTRTLAAEL 168
>gnl|CDD|181188 PRK07985, PRK07985, oxidoreductase; Provisional.
Length = 294
Score = 43.8 bits (103), Expect = 3e-06
Identities = 24/76 (31%), Positives = 43/76 (56%), Gaps = 2/76 (2%)
Query: 16 DRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQF 75
D + ++ ++TF ++V + FWL +E + P+L G +T SS+ PH AA++
Sbjct: 147 DLTSEQFQKTFAINVFALFWLTQEAI-PLLPKG-ASIITTSSIQAYQPSPHLLDYAATKA 204
Query: 76 AVQGLSEALAQQLWKK 91
A+ S LA+Q+ +K
Sbjct: 205 AILNYSRGLAKQVAEK 220
>gnl|CDD|168574 PRK06484, PRK06484, short chain dehydrogenase; Validated.
Length = 520
Score = 43.7 bits (103), Expect = 4e-06
Identities = 25/90 (27%), Positives = 45/90 (50%), Gaps = 2/90 (2%)
Query: 11 PHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHW-VTLSSVAGLTGQPHHTS 69
A LD ++++ + +++ + + E L M+ G G V ++S AGL P T+
Sbjct: 94 MTATLDTTLEEFARLQAINLTGAYLVAREALRLMIEQGHGAAIVNVASGAGLVALPKRTA 153
Query: 70 MAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
+AS+ AV L+ +LA + W + V V
Sbjct: 154 YSASKAAVISLTRSLACE-WAAKGIRVNAV 182
>gnl|CDD|187624 cd05366, meso-BDH-like_SDR_c, meso-2,3-butanediol
dehydrogenase-like, classical (c) SDRs. 2,3-butanediol
dehydrogenases (BDHs) catalyze the NAD+ dependent
conversion of 2,3-butanediol to acetonin; BDHs are
classified into types according to their
stereospecificity as to substrates and products.
Included in this subgroup are Klebsiella pneumonia
meso-BDH which catalyzes meso-2,3-butanediol to
D(-)-acetonin, and Corynebacterium glutamicum L-BDH
which catalyzes lX+)-2,3-butanediol to L(+)-acetonin.
This subgroup is comprised of classical SDRs with the
characteristic catalytic triad and NAD-binding motif.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 43.1 bits (102), Expect = 5e-06
Identities = 22/76 (28%), Positives = 43/76 (56%), Gaps = 1/76 (1%)
Query: 14 LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGR-GHWVTLSSVAGLTGQPHHTSMAA 72
LL + + +K+ + ++V + ++ G G + SS+AG+ G P+ + +A
Sbjct: 96 LLTITEEDLKKVYAVNVFGVLFGIQAAARQFKKLGHGGKIINASSIAGVQGFPNLGAYSA 155
Query: 73 SQFAVQGLSEALAQQL 88
S+FAV+GL++ AQ+L
Sbjct: 156 SKFAVRGLTQTAAQEL 171
>gnl|CDD|187620 cd05362, THN_reductase-like_SDR_c,
tetrahydroxynaphthalene/trihydroxynaphthalene
reductase-like, classical (c) SDRs.
1,3,6,8-tetrahydroxynaphthalene reductase (4HNR) of
Magnaporthe grisea and the related
1,3,8-trihydroxynaphthalene reductase (3HNR) are typical
members of the SDR family containing the canonical
glycine rich NAD(P)-binding site and active site tetrad,
and function in fungal melanin biosynthesis. This
subgroup also includes an SDR from Norway spruce that
may function to protect against both biotic and abitoic
stress. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 243
Score = 43.0 bits (102), Expect = 5e-06
Identities = 19/87 (21%), Positives = 43/87 (49%), Gaps = 2/87 (2%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
+++ G+ + + S ++ + F ++ F++L+E L G G + +SS
Sbjct: 85 LVNNAGVMLKKPIAETSEEEFDRMFTVNTKGAFFVLQEAA-KRLRDG-GRIINISSSLTA 142
Query: 62 TGQPHHTSMAASQFAVQGLSEALAQQL 88
P++ + A S+ AV+ + LA++L
Sbjct: 143 AYTPNYGAYAGSKAAVEAFTRVLAKEL 169
>gnl|CDD|181198 PRK08017, PRK08017, oxidoreductase; Provisional.
Length = 256
Score = 43.2 bits (102), Expect = 6e-06
Identities = 27/82 (32%), Positives = 42/82 (51%), Gaps = 1/82 (1%)
Query: 18 SMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAV 77
S Q+++Q F + L L ML G G V SSV GL P + AAS++A+
Sbjct: 94 SRQQMEQQFSTNFFGTHQLTMLLLPAMLPHGEGRIVMTSSVMGLISTPGRGAYAASKYAL 153
Query: 78 QGLSEALAQQLWKKPNVHVTLV 99
+ S+AL +L + + V+L+
Sbjct: 154 EAWSDALRMEL-RHSGIKVSLI 174
>gnl|CDD|236210 PRK08267, PRK08267, short chain dehydrogenase; Provisional.
Length = 260
Score = 42.6 bits (101), Expect = 7e-06
Identities = 16/44 (36%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 53 VTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHV 96
+ SS + + GQP +A++FAV+GL+EAL + W++ + V
Sbjct: 132 INTSSASAIYGQPGLAVYSATKFAVRGLTEALDLE-WRRHGIRV 174
>gnl|CDD|235910 PRK07024, PRK07024, short chain dehydrogenase; Provisional.
Length = 257
Score = 42.2 bits (100), Expect = 1e-05
Identities = 27/101 (26%), Positives = 46/101 (45%), Gaps = 15/101 (14%)
Query: 23 KQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSE 82
++ + + + F+ PM ++ RG V ++SVAG+ G P + +AS+ A E
Sbjct: 104 REVMDTNYFGMVATFQPFIAPMRAARRGTLVGIASVAGVRGLPGAGAYSASKAAAIKYLE 163
Query: 83 ALAQQLWKKPNVHV------------TLVHIY--PFLLSAD 109
+L +L + V V T + Y PFL+ AD
Sbjct: 164 SLRVEL-RPAGVRVVTIAPGYIRTPMTAHNPYPMPFLMDAD 203
>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
Length = 280
Score = 41.9 bits (99), Expect = 1e-05
Identities = 22/85 (25%), Positives = 45/85 (52%), Gaps = 3/85 (3%)
Query: 16 DRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQF 75
+ +++ ++ FE +V + + L M G + +SS++G G P + +S++
Sbjct: 99 EIPVEEYRKQFETNVFGAISVTQAVLPYMRKQKSGKIINISSISGRVGFPGLSPYVSSKY 158
Query: 76 AVQGLSEALAQQLWKKP-NVHVTLV 99
A++G SE+L +L KP + V L+
Sbjct: 159 ALEGFSESLRLEL--KPFGIDVALI 181
>gnl|CDD|187618 cd05360, SDR_c3, classical (c) SDR, subgroup 3. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also active site Asn) and a
typical Gly-rich NAD-binding motif. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 233
Score = 41.6 bits (98), Expect = 2e-05
Identities = 21/79 (26%), Positives = 39/79 (49%), Gaps = 1/79 (1%)
Query: 23 KQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSE 82
++ F+++ L H + L + G G + + S+ G P + +AS+ AV+G +E
Sbjct: 102 RRVFDVNYLGHVYGTLAALPHLRRRGGGALINVGSLLGYRSAPLQAAYSASKHAVRGFTE 161
Query: 83 ALAQQLWK-KPNVHVTLVH 100
+L +L + VTLV
Sbjct: 162 SLRAELAHDGAPISVTLVQ 180
>gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional.
Length = 277
Score = 41.6 bits (98), Expect = 2e-05
Identities = 26/89 (29%), Positives = 44/89 (49%), Gaps = 1/89 (1%)
Query: 11 PHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSM 70
P A+ D + ++ FE + L + M G+G V SS+ GL + +
Sbjct: 89 PGAVEDLPTEALRAQFEANFFGWHDLTRRVIPVMRKQGQGRIVQCSSILGLVPMKYRGAY 148
Query: 71 AASQFAVQGLSEALAQQLWKKPNVHVTLV 99
AS+FA++GLS L +L + +HV+L+
Sbjct: 149 NASKFAIEGLSLTLRMEL-QGSGIHVSLI 176
>gnl|CDD|215720 pfam00106, adh_short, short chain dehydrogenase. This family
contains a wide variety of dehydrogenases.
Length = 167
Score = 40.6 bits (96), Expect = 2e-05
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 4/87 (4%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
V+H G+ L + + ++ ++ V + L E G +V SSVAG+
Sbjct: 84 VVHNAGVLDDGPLEELTPERFERVLAPKVTGAWNLHELTRD----LDLGAFVLFSSVAGV 139
Query: 62 TGQPHHTSMAASQFAVQGLSEALAQQL 88
G P + AA+ A+ L+E +
Sbjct: 140 LGSPGQANYAAANAALDALAEHRRAEG 166
>gnl|CDD|187631 cd05373, SDR_c10, classical (c) SDR, subgroup 10. This subgroup
resembles the classical SDRs, but has an incomplete
match to the canonical glycine rich NAD-binding motif
and lacks the typical active site tetrad (instead of the
critical active site Tyr, it has Phe, but contains the
nearby Lys). SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 238
Score = 41.2 bits (97), Expect = 2e-05
Identities = 21/83 (25%), Positives = 46/83 (55%), Gaps = 1/83 (1%)
Query: 14 LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAAS 73
+L+ + + ++ +E++ F E ML+ GRG + + A L G+ + A +
Sbjct: 93 ILETTPRVFEKVWEMAAFGGFLAAREAAKRMLARGRGTIIFTGATASLRGRAGFAAFAGA 152
Query: 74 QFAVQGLSEALAQQLWKKPNVHV 96
+FA++ L++++A++L K +HV
Sbjct: 153 KFALRALAQSMARELGPK-GIHV 174
>gnl|CDD|233590 TIGR01830, 3oxo_ACP_reduc, 3-oxoacyl-(acyl-carrier-protein)
reductase. This model represents 3-oxoacyl-[ACP]
reductase, also called 3-ketoacyl-acyl carrier protein
reductase, an enzyme of fatty acid biosynthesis [Fatty
acid and phospholipid metabolism, Biosynthesis].
Length = 239
Score = 41.0 bits (97), Expect = 3e-05
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 34 FWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPN 93
F L + L M+ G + +SSV GL G + AAS+ V G +++LA++L + N
Sbjct: 112 FNLTQAVLRIMIKQRSGRIINISSVVGLMGNAGQANYAASKAGVIGFTKSLAKELASR-N 170
Query: 94 VHVTLV 99
+ V V
Sbjct: 171 ITVNAV 176
>gnl|CDD|235725 PRK06179, PRK06179, short chain dehydrogenase; Provisional.
Length = 270
Score = 41.0 bits (97), Expect = 3e-05
Identities = 24/83 (28%), Positives = 43/83 (51%), Gaps = 1/83 (1%)
Query: 17 RSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFA 76
S+ + + F+ +V + L M + G G + +SSV G P+ AAS+ A
Sbjct: 92 SSIAQAQALFDTNVFGILRMTRAVLPHMRAQGSGRIINISSVLGFLPAPYMALYAASKHA 151
Query: 77 VQGLSEALAQQLWKKPNVHVTLV 99
V+G SE+L ++ ++ + V+LV
Sbjct: 152 VEGYSESLDHEV-RQFGIRVSLV 173
>gnl|CDD|180723 PRK06841, PRK06841, short chain dehydrogenase; Provisional.
Length = 255
Score = 40.0 bits (94), Expect = 7e-05
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 44 MLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHV 96
M+++G G V L+S AG+ H + AS+ V G+++ LA + W + V
Sbjct: 135 MIAAGGGKIVNLASQAGVVALERHVAYCASKAGVVGMTKVLALE-WGPYGITV 186
>gnl|CDD|235506 PRK05565, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 247
Score = 39.8 bits (94), Expect = 8e-05
Identities = 19/76 (25%), Positives = 36/76 (47%)
Query: 16 DRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQF 75
D + ++ + ++++ L L M+ G V +SS+ GL G +AS+
Sbjct: 101 DMTDEEWDRVIDVNLTGVMLLTRYALPYMIKRKSGVIVNISSIWGLIGASCEVLYSASKG 160
Query: 76 AVQGLSEALAQQLWKK 91
AV ++ALA++L
Sbjct: 161 AVNAFTKALAKELAPS 176
>gnl|CDD|187601 cd05343, Mgc4172-like_SDR_c, human Mgc4172-like, classical (c)
SDRs. Human Mgc4172-like proteins, putative SDRs. These
proteins are members of the SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 39.4 bits (92), Expect = 1e-04
Identities = 29/111 (26%), Positives = 52/111 (46%), Gaps = 5/111 (4%)
Query: 3 IHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSG--RGHWVTLSSVAG 60
I+ GL+ P LL + K+ F+++VL+ E M GH + ++S++G
Sbjct: 89 INNAGLARPEPLLSGKTEGWKEMFDVNVLALSICTREAYQSMKERNVDDGHIININSMSG 148
Query: 61 --LTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPFLLSAD 109
+ AA++ AV L+E L Q+L ++ H+ I P L+ +
Sbjct: 149 HRVPPVSVFHFYAATKHAVTALTEGLRQEL-REAKTHIRATSISPGLVETE 198
>gnl|CDD|187636 cd08931, SDR_c9, classical (c) SDR, subgroup 9. This subgroup has
the canonical active site tetrad and NAD-binding motif
of the classical SDRs. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 227
Score = 39.4 bits (92), Expect = 1e-04
Identities = 16/47 (34%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 53 VTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
+ +S + + GQP +A++FAV+GL+EAL + W + + V V
Sbjct: 131 INTASSSAIYGQPDLAVYSATKFAVRGLTEALDVE-WARHGIRVADV 176
>gnl|CDD|180817 PRK07060, PRK07060, short chain dehydrogenase; Provisional.
Length = 245
Score = 39.3 bits (92), Expect = 1e-04
Identities = 22/88 (25%), Positives = 44/88 (50%), Gaps = 1/88 (1%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGR-GHWVTLSSVAG 60
+++C G++S + LD + + + ++ + M+++GR G V +SS A
Sbjct: 81 LVNCAGIASLESALDMTAEGFDRVMAVNARGAALVARHVARAMIAAGRGGSIVNVSSQAA 140
Query: 61 LTGQPHHTSMAASQFAVQGLSEALAQQL 88
L G P H + AS+ A+ ++ L +L
Sbjct: 141 LVGLPDHLAYCASKAALDAITRVLCVEL 168
>gnl|CDD|168186 PRK05693, PRK05693, short chain dehydrogenase; Provisional.
Length = 274
Score = 39.4 bits (92), Expect = 1e-04
Identities = 24/75 (32%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 14 LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAAS 73
LLD ++ +++ FE +V + + P+L RG V + SV+G+ P + AS
Sbjct: 88 LLDGGVEAMRRQFETNVFAVVGVTRALF-PLLRRSRGLVVNIGSVSGVLVTPFAGAYCAS 146
Query: 74 QFAVQGLSEALAQQL 88
+ AV LS+AL +L
Sbjct: 147 KAAVHALSDALRLEL 161
>gnl|CDD|188169 TIGR01829, AcAcCoA_reduct, acetoacetyl-CoA reductase. This model
represent acetoacetyl-CoA reductase, a member of the
family short-chain-alcohol dehydrogenases. Note that,
despite the precision implied by the enzyme name, the
reaction of EC 1.1.1.36 is defined more generally as
(R)-3-hydroxyacyl-CoA + NADP+ = 3-oxoacyl-CoA + NADPH.
Members of this family may act in the biosynthesis of
poly-beta-hydroxybutyrate (e.g. Rhizobium meliloti) and
related poly-beta-hydroxyalkanoates. Note that the
member of this family from Azospirillum brasilense,
designated NodG, appears to lack acetoacetyl-CoA
reductase activity and to act instead in the production
of nodulation factor. This family is downgraded to
subfamily for this NodG. Other proteins designated NodG,
as from Rhizobium, belong to related but distinct
protein families.
Length = 242
Score = 38.9 bits (91), Expect = 2e-04
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 44 MLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
M G G + +SSV G GQ T+ +A++ + G ++ALAQ+ K V V +
Sbjct: 124 MRERGWGRIINISSVNGQKGQFGQTNYSAAKAGMIGFTKALAQEGATK-GVTVNTI 178
>gnl|CDD|187634 cd08929, SDR_c4, classical (c) SDR, subgroup 4. This subgroup has
a canonical active site tetrad and a typical Gly-rich
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 226
Score = 38.6 bits (90), Expect = 2e-04
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 24 QTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEA 83
+ ++ F+ + + +L G G V + S+AG + AS+F + GLSEA
Sbjct: 100 LVLDTNLTGAFYCIHKAAPALLRRGGGTIVNVGSLAGKNAFKGGAAYNASKFGLLGLSEA 159
Query: 84 LAQQLWKKPNVHVTLV 99
L ++ N+ V V
Sbjct: 160 AMLDL-REANIRVVNV 174
>gnl|CDD|235545 PRK05650, PRK05650, short chain dehydrogenase; Provisional.
Length = 270
Score = 38.9 bits (91), Expect = 2e-04
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 39 EFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTL 98
FL G V ++S+AGL P +S ++ V LSE L +L + V +
Sbjct: 118 AFLPLFKRQKSGRIVNIASMAGLMQGPAMSSYNVAKAGVVALSETLLVEL-ADDEIGVHV 176
Query: 99 V 99
V
Sbjct: 177 V 177
>gnl|CDD|236372 PRK09072, PRK09072, short chain dehydrogenase; Provisional.
Length = 263
Score = 38.8 bits (91), Expect = 2e-04
Identities = 23/88 (26%), Positives = 45/88 (51%)
Query: 1 MVIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG 60
++I+ G++ L D+ + +++ L++ + L L + + V + S G
Sbjct: 83 VLINNAGVNHFALLEDQDPEAIERLLALNLTAPMQLTRALLPLLRAQPSAMVVNVGSTFG 142
Query: 61 LTGQPHHTSMAASQFAVQGLSEALAQQL 88
G P + S AS+FA++G SEAL ++L
Sbjct: 143 SIGYPGYASYCASKFALRGFSEALRREL 170
>gnl|CDD|131468 TIGR02415, 23BDH, acetoin reductases. One member of this family,
as characterized in Klebsiella terrigena, is described
as able to interconvert acetoin + NADH with
meso-2,3-butanediol + NAD(+). It is also called capable
of irreversible reduction of diacetyl with NADH to
acetoin. Blomqvist, et al. decline to specify either EC
1.1.1.4 which is (R,R)-butanediol dehydrogenase, or EC
1.1.1.5, which is acetoin dehydrogenase without a
specified stereochemistry, for this enzyme. This enzyme
is a homotetramer in the family of short chain
dehydrogenases (pfam00106). Another member of this
family, from Corynebacterium glutamicum, is called
L-2,3-butanediol dehydrogenase (PMID:11577733) [Energy
metabolism, Fermentation].
Length = 254
Score = 38.6 bits (90), Expect = 2e-04
Identities = 20/86 (23%), Positives = 48/86 (55%), Gaps = 1/86 (1%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSG-RGHWVTLSSVAGLTGQP 65
G++ +L+ + +++K+ + ++V + ++ G G + +S+AG G P
Sbjct: 86 GVAPITPILEITEEELKKVYNVNVKGVLFGIQAAARQFKKQGHGGKIINAASIAGHEGNP 145
Query: 66 HHTSMAASQFAVQGLSEALAQQLWKK 91
++ ++++FAV+GL++ AQ+L K
Sbjct: 146 ILSAYSSTKFAVRGLTQTAAQELAPK 171
>gnl|CDD|180617 PRK06550, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 235
Score = 38.4 bits (90), Expect = 2e-04
Identities = 20/72 (27%), Positives = 36/72 (50%)
Query: 14 LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAAS 73
LLD S+++ + F+ ++ S F L +L ML G + + S+A + AS
Sbjct: 84 LLDTSLEEWQHIFDTNLTSTFLLTRAYLPQMLERKSGIIINMCSIASFVAGGGGAAYTAS 143
Query: 74 QFAVQGLSEALA 85
+ A+ G ++ LA
Sbjct: 144 KHALAGFTKQLA 155
>gnl|CDD|181324 PRK08251, PRK08251, short chain dehydrogenase; Provisional.
Length = 248
Score = 38.4 bits (90), Expect = 2e-04
Identities = 22/57 (38%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 48 GRGHWVTLSSVAGLTGQPHH-TSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYP 103
G GH V +SSV+ + G P + AAS+ V L E L +L K P + V+ I P
Sbjct: 131 GSGHLVLISSVSAVRGLPGVKAAYAASKAGVASLGEGLRAELAKTP-IKVST--IEP 184
>gnl|CDD|187619 cd05361, haloalcohol_DH_SDR_c-like, haloalcohol dehalogenase,
classical (c) SDRs. Dehalogenases cleave carbon-halogen
bonds. Haloalcohol dehalogenase show low sequence
similarity to short-chain dehydrogenases/reductases
(SDRs). Like the SDRs, haloalcohol dehalogenases have a
conserved catalytic triad (Ser-Tyr-Lys/Arg), and form a
Rossmann fold. However, the normal classical SDR
NAD(P)-binding motif (TGXXGXG) and NAD-binding function
is replaced with a halide binding site, allowing the
enzyme to catalyze a dehalogenation reaction. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 38.3 bits (89), Expect = 3e-04
Identities = 17/71 (23%), Positives = 35/71 (49%)
Query: 18 SMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAV 77
S ++Q FE + F LL+ + M +G G + ++S +++ ++ A
Sbjct: 93 SEADIRQAFEALSIFPFALLQAAIAQMKKAGGGSIIFITSAVPKKPLAYNSLYGPARAAA 152
Query: 78 QGLSEALAQQL 88
L+E+LA++L
Sbjct: 153 VALAESLAKEL 163
>gnl|CDD|187590 cd05329, TR_SDR_c, tropinone reductase-I and II (TR-1, and
TR-II)-like, classical (c) SDRs. This subgroup includes
TR-I and TR-II; these proteins are members of the SDR
family. TRs catalyze the NADPH-dependent reductions of
the 3-carbonyl group of tropinone, to a beta-hydroxyl
group. TR-I and TR-II produce different stereoisomers
from tropinone, TR-I produces tropine
(3alpha-hydroxytropane), and TR-II, produces
pseudotropine (sigma-tropine, 3beta-hydroxytropane).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 251
Score = 38.2 bits (89), Expect = 3e-04
Identities = 26/75 (34%), Positives = 40/75 (53%), Gaps = 11/75 (14%)
Query: 26 FELSVLSHFWLLEEFLTPML-SSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEAL 84
+ LS L+H P+L +SG G+ V +SSVAG+ P A++ A+ L+ +L
Sbjct: 120 YHLSRLAH---------PLLKASGNGNIVFISSVAGVIAVPSGAPYGATKGALNQLTRSL 170
Query: 85 AQQLWKKPNVHVTLV 99
A + W K N+ V V
Sbjct: 171 ACE-WAKDNIRVNAV 184
>gnl|CDD|171822 PRK12938, PRK12938, acetyacetyl-CoA reductase; Provisional.
Length = 246
Score = 38.5 bits (89), Expect = 3e-04
Identities = 23/84 (27%), Positives = 43/84 (51%), Gaps = 3/84 (3%)
Query: 32 SHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKK 91
S F + ++ + M+ G G + +SSV G GQ T+ + ++ + G + +LAQ++ K
Sbjct: 115 SLFNVTKQVIDGMVERGWGRIINISSVNGQKGQFGQTNYSTAKAGIHGFTMSLAQEVATK 174
Query: 92 PNVHVTLVHIYPFLLSADLKSNIR 115
VT+ + P + D+ IR
Sbjct: 175 ---GVTVNTVSPGYIGTDMVKAIR 195
>gnl|CDD|187614 cd05356, 17beta-HSD1_like_SDR_c, 17-beta-hydroxysteroid
dehydrogenases (17beta-HSDs) types -1, -3, and -12,
-like, classical (c) SDRs. This subgroup includes
various 17-beta-hydroxysteroid dehydrogenases and
3-ketoacyl-CoA reductase, these are members of the SDR
family, and contain the canonical active site tetrad and
glycine-rich NAD-binding motif of the classical SDRs.
3-ketoacyl-CoA reductase (KAR, aka 17beta-HSD type 12,
encoded by HSD17B12) acts in fatty acid elongation;
17beta- hydroxysteroid dehydrogenases are isozymes that
catalyze activation and inactivation of estrogen and
androgens, and include members of the SDR family.
17beta-estradiol dehydrogenase (aka 17beta-HSD type 1,
encoded by HSD17B1) converts estrone to estradiol.
Estradiol is the predominant female sex hormone.
17beta-HSD type 3 (aka testosterone
17-beta-dehydrogenase 3, encoded by HSD17B3) catalyses
the reduction of androstenedione to testosterone, it
also accepts estrogens as substrates. This subgroup also
contains a putative steroid dehydrogenase let-767 from
Caenorhabditis elegans, mutation in which results in
hypersensitivity to cholesterol limitation. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 239
Score = 37.6 bits (88), Expect = 4e-04
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 40 FLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
L M+ +G V +SS AGL P + +AS+ + S AL ++ K + V +
Sbjct: 122 ILPGMVKRKKGAIVNISSFAGLIPTPLLATYSASKAFLDFFSRALYEEY-KSQGIDVQSL 180
Query: 100 HIY 102
Y
Sbjct: 181 LPY 183
>gnl|CDD|237220 PRK12828, PRK12828, short chain dehydrogenase; Provisional.
Length = 239
Score = 37.5 bits (87), Expect = 5e-04
Identities = 21/87 (24%), Positives = 39/87 (44%), Gaps = 1/87 (1%)
Query: 14 LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAAS 73
+ D + + ++V + + L + +SG G V + + A L P + AA+
Sbjct: 98 IADGDADTWDRMYGVNVKTTLNASKAALPALTASGGGRIVNIGAGAALKAGPGMGAYAAA 157
Query: 74 QFAVQGLSEALAQQLWKKPNVHVTLVH 100
+ V L+EALA +L + + V V
Sbjct: 158 KAGVARLTEALAAELLDR-GITVNAVL 183
>gnl|CDD|235975 PRK07231, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 251
Score = 37.1 bits (87), Expect = 6e-04
Identities = 26/87 (29%), Positives = 41/87 (47%), Gaps = 1/87 (1%)
Query: 14 LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAAS 73
LLD + + F ++V S + + + M G G V ++S AGL +P AS
Sbjct: 98 LLDVDEAEFDRIFAVNVKSPYLWTQAAVPAMRGEGGGAIVNVASTAGLRPRPGLGWYNAS 157
Query: 74 QFAVQGLSEALAQQLWKKPNVHVTLVH 100
+ AV L++ALA +L + V V
Sbjct: 158 KGAVITLTKALAAELGPD-KIRVNAVA 183
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 37.2 bits (87), Expect = 7e-04
Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 44 MLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWK-KPNVHVTLVH 100
M RG + + S P ++ A++ A++G +++L +L V VT+V
Sbjct: 131 MRPRDRGAIIQVGSALAYRSIPLQSAYCAAKHAIRGFTDSLRCELLHDGSPVSVTMVQ 188
>gnl|CDD|187605 cd05347, Ga5DH-like_SDR_c, gluconate 5-dehydrogenase (Ga5DH)-like,
classical (c) SDRs. Ga5DH catalyzes the NADP-dependent
conversion of carbon source D-gluconate and
5-keto-D-gluconate. This SDR subgroup has a classical
Gly-rich NAD(P)-binding motif and a conserved active
site tetrad pattern. However, it has been proposed that
Arg104 (Streptococcus suis Ga5DH numbering), as well as
an active site Ca2+, play a critical role in catalysis.
In addition to Ga5DHs this subgroup contains Erwinia
chrysanthemi KduD which is involved in pectin
degradation, and is a putative
2,5-diketo-3-deoxygluconate dehydrogenase. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107,15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 248
Score = 37.0 bits (86), Expect = 7e-04
Identities = 20/90 (22%), Positives = 42/90 (46%), Gaps = 1/90 (1%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPH 66
G+ H + + + ++++ F++ + M+ G G + + S+ G P
Sbjct: 91 GIIRRHPAEEFPEAEWRDVIDVNLNGVFFVSQAVARHMIKQGHGKIINICSLLSELGGPP 150
Query: 67 HTSMAASQFAVQGLSEALAQQLWKKPNVHV 96
+ AAS+ V GL++ALA + W + + V
Sbjct: 151 VPAYAASKGGVAGLTKALATE-WARHGIQV 179
>gnl|CDD|237219 PRK12827, PRK12827, short chain dehydrogenase; Provisional.
Length = 249
Score = 36.6 bits (85), Expect = 0.001
Identities = 19/49 (38%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 41 LTPMLSSGR-GHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQL 88
L PM+ + R G V ++SVAG+ G + AAS+ + GL++ LA +L
Sbjct: 130 LPPMIRARRGGRIVNIASVAGVRGNRGQVNYAASKAGLIGLTKTLANEL 178
>gnl|CDD|187613 cd05355, SDR_c1, classical (c) SDR, subgroup 1. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 270
Score = 36.5 bits (85), Expect = 0.001
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 2/78 (2%)
Query: 14 LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAAS 73
+ D + +++++TF ++ S F+L + L P L G + +SV G PH AA+
Sbjct: 122 IEDITTEQLEKTFRTNIFSMFYLTKAAL-PHLKKG-SSIINTTSVTAYKGSPHLLDYAAT 179
Query: 74 QFAVQGLSEALAQQLWKK 91
+ A+ + L+ QL +K
Sbjct: 180 KGAIVAFTRGLSLQLAEK 197
>gnl|CDD|187665 cd09805, type2_17beta_HSD-like_SDR_c, human 17beta-hydroxysteroid
dehydrogenase type 2 (type 2 17beta-HSD)-like, classical
(c) SDRs. 17beta-hydroxysteroid dehydrogenases are a
group of isozymes that catalyze activation and
inactivation of estrogen and androgens. This
classical-SDR subgroup includes the human proteins: type
2 17beta-HSD, type 6 17beta-HSD, type 2 11beta-HSD,
dehydrogenase/reductase SDR family member 9,
short-chain dehydrogenase/reductase family 9C member 7,
3-hydroxybutyrate dehydrogenase type 1, and retinol
dehydrogenase 5. SDRs are a functionally diverse family
of oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 281
Score = 36.5 bits (85), Expect = 0.001
Identities = 19/61 (31%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 40 FLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
FL P+L +G V +SS+ G P + AS+ AV+ S++L ++L + V V+++
Sbjct: 121 FL-PLLRRAKGRVVNVSSMGGRVPFPAGGAYCASKAAVEAFSDSLRREL-QPWGVKVSII 178
Query: 100 H 100
Sbjct: 179 E 179
>gnl|CDD|187587 cd05326, secoisolariciresinol-DH_like_SDR_c, secoisolariciresinol
dehydrogenase (secoisolariciresinol-DH)-like, classical
(c) SDRs. Podophyllum secoisolariciresinol-DH is a homo
tetrameric, classical SDR that catalyzes the
NAD-dependent conversion of (-)-secoisolariciresinol to
(-)-matairesinol via a (-)-lactol intermediate.
(-)-Matairesinol is an intermediate to various
8'-lignans, including the cancer-preventive mammalian
lignan, and those involved in vascular plant defense.
This subgroup also includes rice momilactone A synthase
which catalyzes the conversion of
3beta-hydroxy-9betaH-pimara-7,15-dien-19,6beta-olide
into momilactone A, Arabidopsis ABA2 which during
abscisic acid (ABA) biosynthesis, catalyzes the
conversion of xanthoxin to abscisic aldehyde and, maize
Tasselseed2 which participate in the maize sex
determination pathway. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering). In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 249
Score = 35.5 bits (82), Expect = 0.002
Identities = 22/80 (27%), Positives = 47/80 (58%), Gaps = 4/80 (5%)
Query: 11 PHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTG--QPHHT 68
+++L+ S+++ ++ +++V F + M+ + +G V+++SVAG+ G PH
Sbjct: 94 CYSILETSLEEFERVLDVNVYGAFLGTKHAARVMIPAKKGSIVSVASVAGVVGGLGPH-- 151
Query: 69 SMAASQFAVQGLSEALAQQL 88
+ AS+ AV GL+ + A +L
Sbjct: 152 AYTASKHAVLGLTRSAATEL 171
>gnl|CDD|235990 PRK07326, PRK07326, short chain dehydrogenase; Provisional.
Length = 237
Score = 35.0 bits (81), Expect = 0.003
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 43 PMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVT 97
P L G G+ + +SS+AG + AS+F + G SEA L ++ + V+
Sbjct: 126 PALKRGGGYIINISSLAGTNFFAGGAAYNASKFGLVGFSEAAMLDL-RQYGIKVS 179
>gnl|CDD|181131 PRK07814, PRK07814, short chain dehydrogenase; Provisional.
Length = 263
Score = 35.1 bits (81), Expect = 0.004
Identities = 21/90 (23%), Positives = 35/90 (38%), Gaps = 14/90 (15%)
Query: 1 MVIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPML-SSGRGHWVTLSSVA 59
+V++ G + P+ LL S + + F +V + L + ML SG G + +SS
Sbjct: 90 IVVNNVGGTMPNPLLSTSTKDLADAFTFNVATAHALTVAAVPLMLEHSGGGSVINISSTM 149
Query: 60 GLTGQP-------------HHTSMAASQFA 76
G H+T +AA
Sbjct: 150 GRLAGRGFAAYGTAKAALAHYTRLAALDLC 179
>gnl|CDD|181305 PRK08226, PRK08226, short chain dehydrogenase; Provisional.
Length = 263
Score = 34.8 bits (80), Expect = 0.004
Identities = 16/54 (29%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 44 MLSSGRGHWVTLSSVAG-LTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHV 96
M++ G V +SSV G + P T+ A ++ A+ GL+++LA + + + V
Sbjct: 128 MIARKDGRIVMMSSVTGDMVADPGETAYALTKAAIVGLTKSLAVEYAQS-GIRV 180
>gnl|CDD|187602 cd05344, BKR_like_SDR_like, putative beta-ketoacyl acyl carrier
protein [ACP] reductase (BKR)-like, SDR. This subgroup
resembles the SDR family, but does not have a perfect
match to the NAD-binding motif or the catalytic tetrad
characteristic of the SDRs. It includes the SDRs, Q9HYA2
from Pseudomonas aeruginosa PAO1 and APE0912 from
Aeropyrum pernix K1. BKR catalyzes the NADPH-dependent
reduction of ACP in the first reductive step of de novo
fatty acid synthesis (FAS). FAS consists of four
elongation steps, which are repeated to extend the fatty
acid chain through the addition of two-carbo units from
malonyl acyl-carrier protein (ACP): condensation,
reduction, dehydration, and a final reduction. Type II
FAS, typical of plants and many bacteria, maintains
these activities on discrete polypeptides, while type I
FAS utilizes one or two multifunctional polypeptides.
BKR resembles enoyl reductase, which catalyzes the
second reduction step in FAS. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 253
Score = 34.9 bits (81), Expect = 0.004
Identities = 18/73 (24%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 24 QTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEA 83
+ F+L +LS ++ L M G G V +SS+ +P+ ++ + GL +
Sbjct: 104 EAFDLKLLSVIRIVRAVLPGMKERGWGRIVNISSLTVKEPEPNLVLSNVARAGLIGLVKT 163
Query: 84 LAQQLWKKPNVHV 96
L+++L V V
Sbjct: 164 LSRELAPD-GVTV 175
>gnl|CDD|180448 PRK06182, PRK06182, short chain dehydrogenase; Validated.
Length = 273
Score = 34.6 bits (80), Expect = 0.006
Identities = 22/82 (26%), Positives = 41/82 (50%), Gaps = 8/82 (9%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQP- 65
G S A+ D + + ++ FE+++ L + L M + G + +SS+ G P
Sbjct: 83 GYGSYGAIEDVPIDEARRQFEVNLFGAARLTQLVLPHMRAQRSGRIINISSMGGKIYTPL 142
Query: 66 ---HHTSMAASQFAVQGLSEAL 84
+H A++FA++G S+AL
Sbjct: 143 GAWYH----ATKFALEGFSDAL 160
>gnl|CDD|234422 TIGR03971, SDR_subfam_1, oxidoreductase, SDR family. Members of
this protein subfamily are putative oxidoreductases
belonging to the larger SDR family. Members of the
present subfamily may occur several to a genome and are
largely restricted to genomes that contain members of
families TIGR03962, TIGR03967, and TIGR03969. Many
members have been annotated by homology as carveol
dehydrogenases.
Length = 265
Score = 34.4 bits (79), Expect = 0.006
Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 44 MLSSGRGHWVTL-SSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIY 102
M+ G G + + SSVAGL P AA++ + GL++ LA +L + + V +H Y
Sbjct: 139 MIERGNGGSIIITSSVAGLKALPGLAHYAAAKHGLVGLTKTLANEL-AEYGIRVNSIHPY 197
>gnl|CDD|181508 PRK08628, PRK08628, short chain dehydrogenase; Provisional.
Length = 258
Score = 34.5 bits (80), Expect = 0.006
Identities = 17/51 (33%), Positives = 28/51 (54%)
Query: 31 LSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLS 81
L H++++ + P L + RG V +SS LTGQ + AA++ A L+
Sbjct: 114 LIHYYVMAHYCLPHLKASRGAIVNISSKTALTGQGGTSGYAAAKGAQLALT 164
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 34.1 bits (79), Expect = 0.008
Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 12/106 (11%)
Query: 1 MVIHCCGLSSPHA-LLDRSMQKVKQTFELSVLSHFWLLEEFLTPML-SSGRGHWVTLSSV 58
++++ G+ + LL+ ++ E + + F P+L ++G G V + SV
Sbjct: 76 ILVNNAGIFRTGSLLLEGDEDALRAEMETNYFGPLAMARAF-APVLAANGGGAIVNVLSV 134
Query: 59 AGLTGQPHHTSMAASQFAV----QGLSEALAQQLWKKPNVHVTLVH 100
P+ + +AS+ A Q L LA Q V VH
Sbjct: 135 LSWVNFPNLGTYSASKAAAWSLTQALRAELAPQ-----GTRVLGVH 175
>gnl|CDD|181518 PRK08643, PRK08643, acetoin reductase; Validated.
Length = 256
Score = 33.5 bits (77), Expect = 0.013
Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 7/76 (9%)
Query: 20 QKVKQTFELSVLSHFW----LLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQF 75
++ + + ++V W E F L G G + +S AG+ G P ++++F
Sbjct: 101 EQFDKVYNINVGGVIWGIQAAQEAFKK--LGHG-GKIINATSQAGVVGNPELAVYSSTKF 157
Query: 76 AVQGLSEALAQQLWKK 91
AV+GL++ A+ L +
Sbjct: 158 AVRGLTQTAARDLASE 173
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 33.4 bits (76), Expect = 0.013
Identities = 22/104 (21%), Positives = 53/104 (50%), Gaps = 8/104 (7%)
Query: 16 DRSMQKV-----KQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSM 70
DR+ +K+ ++ ++++ S F L + + G +++SS+ G G T+
Sbjct: 97 DRTFKKLNREDWERVIDVNLSSVFNTTSAVLPYITEAEEGRIISISSIIGQAGGFGQTNY 156
Query: 71 AASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPFLLSADLKSNI 114
+A++ + G +++LA +L K +VT+ I P + ++ + +
Sbjct: 157 SAAKAGMLGFTKSLALELAK---TNVTVNAICPGFIDTEMVAEV 197
>gnl|CDD|180458 PRK06194, PRK06194, hypothetical protein; Provisional.
Length = 287
Score = 33.5 bits (77), Expect = 0.014
Identities = 18/54 (33%), Positives = 25/54 (46%), Gaps = 7/54 (12%)
Query: 42 TPML-------SSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQL 88
TP++ + GH V +S+AGL P S+ AV L+E L Q L
Sbjct: 126 TPLMLAAAEKDPAYEGHIVNTASMAGLLAPPAMGIYNVSKHAVVSLTETLYQDL 179
>gnl|CDD|181044 PRK07577, PRK07577, short chain dehydrogenase; Provisional.
Length = 234
Score = 33.2 bits (76), Expect = 0.017
Identities = 20/87 (22%), Positives = 43/87 (49%), Gaps = 1/87 (1%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
+++ G++ P L + ++ ++L+V + + + FL M +G V + S A +
Sbjct: 72 IVNNVGIALPQPLGKIDLAALQDVYDLNVRAAVQVTQAFLEGMKLREQGRIVNICSRA-I 130
Query: 62 TGQPHHTSMAASQFAVQGLSEALAQQL 88
G TS +A++ A+ G + A +L
Sbjct: 131 FGALDRTSYSAAKSALVGCTRTWALEL 157
>gnl|CDD|180822 PRK07069, PRK07069, short chain dehydrogenase; Validated.
Length = 251
Score = 33.1 bits (76), Expect = 0.018
Identities = 21/79 (26%), Positives = 41/79 (51%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPH 66
G+ S A+ + + ++ ++V S F + L + +S V +SSVA +P
Sbjct: 88 GVGSFGAIEQIELDEWRRVMAINVESIFLGCKHALPYLRASQPASIVNISSVAAFKAEPD 147
Query: 67 HTSMAASQFAVQGLSEALA 85
+T+ AS+ AV L++++A
Sbjct: 148 YTAYNASKAAVASLTKSIA 166
>gnl|CDD|187642 cd08937, DHB_DH-like_SDR_c,
1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase (DHB DH)-like, classical (c) SDR. DHB DH
(aka 1,2-dihydroxycyclohexa-3,5-diene-1-carboxylate
dehydrogenase) catalyzes the NAD-dependent conversion of
1,2-dihydroxycyclohexa-3,4-diene carboxylate to a
catechol. This subgroup also contains Pseudomonas putida
F1 CmtB, 2,3-dihydroxy-2,3-dihydro-p-cumate
dehydrogenase, the second enzyme in the pathway for
catabolism of p-cumate catabolism. This subgroup shares
the glycine-rich NAD-binding motif of the classical SDRs
and shares the same catalytic triad; however, the
upstream Asn implicated in cofactor binding or catalysis
in other SDRs is generally substituted by a Ser. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 32.9 bits (75), Expect = 0.020
Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 20 QKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQG 79
++++ S+ W L ML +G V +SS+A T + +A++ V
Sbjct: 103 EQIEAEIRRSLFPTLWCCRAVLPHMLERQQGVIVNVSSIA--TRGIYRIPYSAAKGGVNA 160
Query: 80 LSEALA 85
L+ +LA
Sbjct: 161 LTASLA 166
>gnl|CDD|130890 TIGR01831, fabG_rel, 3-oxoacyl-(acyl-carrier-protein) reductase,
putative. This model represents a small, very well
conserved family of proteins closely related to the FabG
family, TIGR01830, and possibly equal in function. In
all completed genomes with a member of this family, a
FabG in TIGR01830 is also found [Fatty acid and
phospholipid metabolism, Biosynthesis].
Length = 239
Score = 33.0 bits (75), Expect = 0.021
Identities = 20/73 (27%), Positives = 43/73 (58%), Gaps = 4/73 (5%)
Query: 43 PMLSSGRG-HWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHI 101
PM+ + +G +TL+SV+G+ G + +A++ + G ++ALA +L K+ +T+ I
Sbjct: 121 PMIRARQGGRIITLASVSGVMGNRGQVNYSAAKAGLIGATKALAVELAKR---KITVNCI 177
Query: 102 YPFLLSADLKSNI 114
P L+ ++ + +
Sbjct: 178 APGLIDTEMLAEV 190
>gnl|CDD|135765 PRK06113, PRK06113, 7-alpha-hydroxysteroid dehydrogenase;
Validated.
Length = 255
Score = 32.9 bits (75), Expect = 0.022
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 1/81 (1%)
Query: 16 DRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQF 75
D M ++ +EL+V S F L + M +G G +T++S+A + TS A+S+
Sbjct: 105 DMPMADFRRAYELNVFSFFHLSQLVAPEMEKNGGGVILTITSMAAENKNINMTSYASSKA 164
Query: 76 AVQGLSEALAQQLWKKPNVHV 96
A L +A L +K N+ V
Sbjct: 165 AASHLVRNMAFDLGEK-NIRV 184
>gnl|CDD|187585 cd05324, carb_red_PTCR-like_SDR_c, Porcine testicular carbonyl
reductase (PTCR)-like, classical (c) SDRs. PTCR is a
classical SDR which catalyzes the NADPH-dependent
reduction of ketones on steroids and prostaglandins.
Unlike most SDRs, PTCR functions as a monomer. This
subgroup also includes human carbonyl reductase 1 (CBR1)
and CBR3. CBR1 is an NADPH-dependent SDR with broad
substrate specificity and may be responsible for the in
vivo reduction of quinones, prostaglandins, and other
carbonyl-containing compounds. In addition it includes
poppy NADPH-dependent salutaridine reductase which
catalyzes the stereospecific reduction of salutaridine
to 7(S)-salutaridinol in the biosynthesis of morphine,
and Arabidopsis SDR1,a menthone reductase, which
catalyzes the reduction of menthone to neomenthol, a
compound with antimicrobial activity; SDR1 can also
carry out neomenthol oxidation. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering). In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 225
Score = 32.6 bits (75), Expect = 0.022
Identities = 19/79 (24%), Positives = 34/79 (43%), Gaps = 7/79 (8%)
Query: 23 KQTFELSVLSHFWLLEEFLTPMLS-SGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLS 81
++T + + + + L P+L S G V +SS G + S A A+ L+
Sbjct: 104 RETMKTNFFGTVDVTQALL-PLLKKSPAGRIVNVSSGLGSLTSAYGVSKA----ALNALT 158
Query: 82 EALAQQLWKKPNVHVTLVH 100
LA++L K+ + V
Sbjct: 159 RILAKEL-KETGIKVNACC 176
>gnl|CDD|177895 PLN02253, PLN02253, xanthoxin dehydrogenase.
Length = 280
Score = 32.5 bits (74), Expect = 0.026
Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 4/75 (5%)
Query: 18 SMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTG--QPHHTSMAASQF 75
+ + ++ F+++V F ++ M+ +G V+L SVA G PH + S+
Sbjct: 116 ELSEFEKVFDVNVKGVFLGMKHAARIMIPLKKGSIVSLCSVASAIGGLGPH--AYTGSKH 173
Query: 76 AVQGLSEALAQQLWK 90
AV GL+ ++A +L K
Sbjct: 174 AVLGLTRSVAAELGK 188
>gnl|CDD|187599 cd05340, Ycik_SDR_c, Escherichia coli K-12 YCIK-like, classical (c)
SDRs. Escherichia coli K-12 YCIK and related proteins
have a canonical classical SDR nucleotide-binding motif
and active site tetrad. They are predicted oxoacyl-(acyl
carrier protein/ACP) reductases. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 236
Score = 32.2 bits (73), Expect = 0.032
Identities = 29/96 (30%), Positives = 48/96 (50%), Gaps = 2/96 (2%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQT-FELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG 60
V+H GL L +V Q +++V + F L + L +L S G V SS G
Sbjct: 88 VLHNAGLLGDVCPLSEQNPQVWQDVXQVNVNATFMLTQALLPLLLKSDAGSLVFTSSSVG 147
Query: 61 LTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHV 96
G+ + + A S+FA +GL + LA + +++ N+ V
Sbjct: 148 RQGRANWGAYAVSKFATEGLXQVLADE-YQQRNLRV 182
>gnl|CDD|236207 PRK08261, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 450
Score = 32.1 bits (74), Expect = 0.048
Identities = 17/39 (43%), Positives = 24/39 (61%)
Query: 50 GHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQL 88
G V +SS++G+ G T+ AAS+ V GL +ALA L
Sbjct: 336 GRIVGVSSISGIAGNRGQTNYAASKAGVIGLVQALAPLL 374
>gnl|CDD|187583 cd05322, SDH_SDR_c_like, Sorbitol 6-phosphate dehydrogenase (SDH),
classical (c) SDRs. Sorbitol 6-phosphate dehydrogenase
(SDH, aka glucitol 6-phosphate dehydrogenase) catalyzes
the NAD-dependent interconversion of D-fructose
6-phosphate to D-sorbitol 6-phosphate. SDH is a member
of the classical SDRs, with the characteristic catalytic
tetrad, but without a complete match to the typical
NAD-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 32.1 bits (73), Expect = 0.048
Identities = 18/74 (24%), Positives = 41/74 (55%), Gaps = 1/74 (1%)
Query: 16 DRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSG-RGHWVTLSSVAGLTGQPHHTSMAASQ 74
D + ++ +++++ +F EF M+ G +G + ++S +G G H++ +A++
Sbjct: 98 DFELGDFDRSLQVNLVGYFLCAREFSKLMIRDGIQGRIIQINSKSGKVGSKHNSGYSAAK 157
Query: 75 FAVQGLSEALAQQL 88
F GL+++LA L
Sbjct: 158 FGGVGLTQSLALDL 171
>gnl|CDD|187592 cd05331, DH-DHB-DH_SDR_c, 2,3 dihydro-2,3 dihydrozybenzoate
dehydrogenases, classical (c) SDRs. 2,3 dihydro-2,3
dihydrozybenzoate dehydrogenase shares the
characteristics of the classical SDRs. This subgroup
includes Escherichai coli EntA which catalyzes the
NAD+-dependent oxidation of
2,3-dihydro-2,3-dihydroxybenzoate to
2,3-dihydroxybenzoate during biosynthesis of the
siderophore Enterobactin. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 244
Score = 31.7 bits (72), Expect = 0.062
Identities = 29/89 (32%), Positives = 43/89 (48%), Gaps = 6/89 (6%)
Query: 3 IHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLT 62
++C G+ P A S + +QTF ++V F LL+ M G VT++S A
Sbjct: 73 VNCAGVLRPGATDPLSTEDWEQTFAVNVTGVFNLLQAVAPHMKDRRTGAIVTVASNAA-- 130
Query: 63 GQPHHTSMA---ASQFAVQGLSEALAQQL 88
P SMA AS+ A+ LS+ L +L
Sbjct: 131 HVP-RISMAAYGASKAALASLSKCLGLEL 158
>gnl|CDD|135637 PRK05876, PRK05876, short chain dehydrogenase; Provisional.
Length = 275
Score = 31.1 bits (70), Expect = 0.087
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 4/78 (5%)
Query: 37 LEEFLTPMLSSGRG-HWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVH 95
+E FL +L G G H V +S AGL + +++ V GL+E LA+++ +
Sbjct: 122 VEAFLPRLLEQGTGGHVVFTASFAGLVPNAGLGAYGVAKYGVVGLAETLAREV-TADGIG 180
Query: 96 VTLVHIYPFLLSADLKSN 113
V++ + P ++ +L +N
Sbjct: 181 VSV--LCPMVVETNLVAN 196
>gnl|CDD|187622 cd05364, SDR_c11, classical (c) SDR, subgroup 11. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 253
Score = 31.2 bits (71), Expect = 0.090
Identities = 24/102 (23%), Positives = 41/102 (40%), Gaps = 9/102 (8%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPH 66
G+ + D+ +++ + L++ + L + P L +G V +SSVAG P
Sbjct: 92 GILAKGGGEDQDIEEYDKVMNLNLRAVI-YLTKLAVPHLIKTKGEIVNVSSVAGGRSFPG 150
Query: 67 HTSMAASQFAVQGLSEALAQQLWKK--------PNVHVTLVH 100
S+ A+ + A +L K P V VT H
Sbjct: 151 VLYYCISKAALDQFTRCTALELAPKGVRVNSVSPGVIVTGFH 192
>gnl|CDD|188170 TIGR01832, kduD, 2-deoxy-D-gluconate 3-dehydrogenase. This model
describes 2-deoxy-D-gluconate 3-dehydrogenase (also
called 2-keto-3-deoxygluconate oxidoreductase), a member
of the family of short-chain-alcohol dehydrogenases
(pfam00106). This protein has been characterized in
Erwinia chrysanthemi as an enzyme of pectin degradation
[Energy metabolism, Biosynthesis and degradation of
polysaccharides].
Length = 248
Score = 30.9 bits (70), Expect = 0.10
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 2/64 (3%)
Query: 34 FWLLEEFLTPMLSSGR-GHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKP 92
F+L + L GR G + ++S+ G S AS+ AV GL++ LA + W
Sbjct: 116 FFLTQAAAKHFLKQGRGGKIINIASMLSFQGGIRVPSYTASKHAVAGLTKLLANE-WAAK 174
Query: 93 NVHV 96
++V
Sbjct: 175 GINV 178
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 31.1 bits (71), Expect = 0.10
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 44 MLSSGRGHWVTLSSVAGLTGQPHH--TSMA--ASQFAVQGLSEALAQQLWKKPNVHV 96
M+ G G + ++SVAGL G P ++A S+ AV + ALA + W + V
Sbjct: 136 MIPRGYGRIINVASVAGLGGNPPEVMDTIAYNTSKGAVINFTRALAAE-WGPHGIRV 191
>gnl|CDD|183833 PRK12939, PRK12939, short chain dehydrogenase; Provisional.
Length = 250
Score = 30.7 bits (70), Expect = 0.11
Identities = 18/42 (42%), Positives = 26/42 (61%)
Query: 47 SGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQL 88
SGRG V L+S L G P + AS+ AV G++ +LA++L
Sbjct: 133 SGRGRIVNLASDTALWGAPKLGAYVASKGAVIGMTRSLAREL 174
>gnl|CDD|187604 cd05346, SDR_c5, classical (c) SDR, subgroup 5. These proteins are
members of the classical SDR family, with a canonical
active site tetrad and a typical Gly-rich NAD-binding
motif. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 249
Score = 30.7 bits (70), Expect = 0.13
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 40 FLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLV 99
L M++ +GH + L S+AG A++ AV+ S L + L + VT +
Sbjct: 121 ILPIMIARNQGHIINLGSIAGRYPYAGGNVYCATKAAVRQFSLNLRKDLIGTG-IRVTNI 179
>gnl|CDD|187586 cd05325, carb_red_sniffer_like_SDR_c, carbonyl reductase
sniffer-like, classical (c) SDRs. Sniffer is an
NADPH-dependent carbonyl reductase of the classical SDR
family. Studies in Drosophila melanogaster implicate
Sniffer in the prevention of neurodegeneration due to
aging and oxidative-stress. This subgroup also includes
Rhodococcus sp. AD45 IsoH, which is an NAD-dependent
1-hydroxy-2-glutathionyl-2-methyl-3-butene dehydrogenase
involved in isoprene metabolism, Aspergillus nidulans
StcE encoded by a gene which is part of a proposed
sterigmatocystin biosynthesis gene cluster, Bacillus
circulans SANK 72073 BtrF encoded by a gene found in the
butirosin biosynthesis gene cluster, and Aspergillus
parasiticus nor-1 involved in the biosynthesis of
aflatoxins. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 233
Score = 30.3 bits (69), Expect = 0.13
Identities = 25/103 (24%), Positives = 49/103 (47%), Gaps = 5/103 (4%)
Query: 2 VIHCCG-LSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG 60
+I+ G L S + + + + F+++VL L + FL +L R + +SS G
Sbjct: 79 LINNAGILHSYGPASEVDSEDLLEVFQVNVLGPLLLTQAFLPLLLKGARAKIINISSRVG 138
Query: 61 -LTGQPHHTSMA--ASQFAVQGLSEALAQQLWKKPNVHVTLVH 100
+ + AS+ A+ L+++LA +L K+ + V +H
Sbjct: 139 SIGDNTSGGWYSYRASKAALNMLTKSLAVEL-KRDGITVVSLH 180
>gnl|CDD|181416 PRK08415, PRK08415, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 274
Score = 30.5 bits (69), Expect = 0.14
Identities = 27/94 (28%), Positives = 44/94 (46%), Gaps = 6/94 (6%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTF----ELSVLSHFWLLEEFLTPMLSSGRGHWVTLSS 57
++H + AL ++ K+ F E+SV S L L P+L+ G +TLS
Sbjct: 87 IVHSVAFAPKEALEGSFLETSKEAFNIAMEISVYSLIELTRALL-PLLNDG-ASVLTLSY 144
Query: 58 VAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKK 91
+ G+ PH+ M ++ A++ LA L KK
Sbjct: 145 LGGVKYVPHYNVMGVAKAALESSVRYLAVDLGKK 178
>gnl|CDD|187591 cd05330, cyclohexanol_reductase_SDR_c, cyclohexanol reductases,
including levodione reductase, classical (c) SDRs.
Cyloclohexanol reductases,including
(6R)-2,2,6-trimethyl-1,4-cyclohexanedione (levodione)
reductase of Corynebacterium aquaticum, catalyze the
reversible oxidoreduction of hydroxycyclohexanone
derivatives. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 30.6 bits (69), Expect = 0.14
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 34 FWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLS 81
F+ LE+ L M G G V +SV G+ G + + AA++ V GL+
Sbjct: 119 FYGLEKVLKVMREQGSGMIVNTASVGGIRGVGNQSGYAAAKHGVVGLT 166
>gnl|CDD|180439 PRK06171, PRK06171, sorbitol-6-phosphate 2-dehydrogenase;
Provisional.
Length = 266
Score = 30.4 bits (69), Expect = 0.15
Identities = 28/111 (25%), Positives = 49/111 (44%), Gaps = 12/111 (10%)
Query: 7 GLSSPHALLDRSMQKVK---------QTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSS 57
G++ P L+D K + F ++ F + + M+ G V +SS
Sbjct: 86 GINIPRLLVDEKDPAGKYELNEAAFDKMFNINQKGVFLMSQAVARQMVKQHDGVIVNMSS 145
Query: 58 VAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPFLLSA 108
AGL G + AA++ A+ + + A++L K N+ V V + P +L A
Sbjct: 146 EAGLEGSEGQSCYAATKAALNSFTRSWAKELGKH-NIRV--VGVAPGILEA 193
>gnl|CDD|180462 PRK06198, PRK06198, short chain dehydrogenase; Provisional.
Length = 260
Score = 30.4 bits (69), Expect = 0.16
Identities = 23/87 (26%), Positives = 43/87 (49%), Gaps = 1/87 (1%)
Query: 3 IHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSG-RGHWVTLSSVAGL 61
++ GL+ +LD S + + F ++V + F+L++E + M G V + S++
Sbjct: 89 VNAAGLTDRGTILDTSPELFDRHFAVNVRAPFFLMQEAIKLMRRRKAEGTIVNIGSMSAH 148
Query: 62 TGQPHHTSMAASQFAVQGLSEALAQQL 88
GQP + AS+ A+ L+ A L
Sbjct: 149 GGQPFLAAYCASKGALATLTRNAAYAL 175
>gnl|CDD|187603 cd05345, BKR_3_SDR_c, putative beta-ketoacyl acyl carrier protein
[ACP] reductase (BKR), subgroup 3, classical (c) SDR.
This subgroup includes the putative Brucella melitensis
biovar Abortus 2308 BKR, FabG, Mesorhizobium loti
MAFF303099 FabG, and other classical SDRs. BKR, a member
of the SDR family, catalyzes the NADPH-dependent
reduction of acyl carrier protein in the first reductive
step of de novo fatty acid synthesis (FAS). FAS
consists of 4 elongation steps, which are repeated to
extend the fatty acid chain thru the addition of
two-carbo units from malonyl acyl-carrier protein (ACP):
condensation, reduction, dehydration, and final
reduction. Type II FAS, typical of plants and many
bacteria, maintains these activities on discrete
polypeptides, while type I Fas utilizes one or 2
multifunctional polypeptides. BKR resembles enoyl
reductase, which catalyzes the second reduction step in
FAS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 248
Score = 30.4 bits (69), Expect = 0.16
Identities = 18/63 (28%), Positives = 32/63 (50%)
Query: 26 FELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALA 85
F ++V S + + + M G G + ++S AGL +P T AS+ V ++A+A
Sbjct: 108 FAVNVKSIYLSAQALVPHMEEQGGGVIINIASTAGLRPRPGLTWYNASKGWVVTATKAMA 167
Query: 86 QQL 88
+L
Sbjct: 168 VEL 170
>gnl|CDD|187611 cd05353, hydroxyacyl-CoA-like_DH_SDR_c-like, (3R)-hydroxyacyl-CoA
dehydrogenase-like, classical(c)-like SDRs. Beta
oxidation of fatty acids in eukaryotes occurs by a
four-reaction cycle, that may take place in mitochondria
or in peroxisomes. (3R)-hydroxyacyl-CoA dehydrogenase is
part of rat peroxisomal multifunctional MFE-2, it is a
member of the NAD-dependent SDRs, but contains an
additional small C-terminal domain that completes the
active site pocket and participates in dimerization. The
atypical, additional C-terminal extension allows for
more extensive dimerization contact than other SDRs.
MFE-2 catalyzes the second and third reactions of the
peroxisomal beta oxidation cycle. Proteins in this
subgroup have a typical catalytic triad, but have a His
in place of the usual upstream Asn. This subgroup also
contains members identified as 17-beta-hydroxysteroid
dehydrogenases, including human peroxisomal
17-beta-hydroxysteroid dehydrogenase type 4 (17beta-HSD
type 4, aka MFE-2, encoded by HSD17B4 gene) which is
involved in fatty acid beta-oxidation and steroid
metabolism. This subgroup also includes two SDR domains
of the Neurospora crassa and Saccharomyces cerevisiae
multifunctional beta-oxidation protein (MFP, aka Fox2).
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 250
Score = 30.0 bits (68), Expect = 0.19
Identities = 22/88 (25%), Positives = 35/88 (39%), Gaps = 6/88 (6%)
Query: 14 LLDRSMQKVKQ-----TFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHT 68
L DRS K+ + + + F + M G + SS AGL G
Sbjct: 99 LRDRSFAKMSEEDWDLVMRVHLKGSFKVTRAAWPYMRKQKFGRIINTSSAAGLYGNFGQA 158
Query: 69 SMAASQFAVQGLSEALAQQLWKKPNVHV 96
+ +A++ + GLS LA + K N+
Sbjct: 159 NYSAAKLGLLGLSNTLAIEG-AKYNITC 185
>gnl|CDD|236145 PRK08063, PRK08063, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 250
Score = 30.1 bits (68), Expect = 0.19
Identities = 15/64 (23%), Positives = 33/64 (51%)
Query: 25 TFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEAL 84
T ++ + + +E M G G ++LSS+ + ++T++ S+ A++ L+ L
Sbjct: 109 TMNINAKALLFCAQEAAKLMEKVGGGKIISLSSLGSIRYLENYTTVGVSKAALEALTRYL 168
Query: 85 AQQL 88
A +L
Sbjct: 169 AVEL 172
>gnl|CDD|211705 TIGR01963, PHB_DH, 3-hydroxybutyrate dehydrogenase. This model
represents a subfamily of the short chain
dehydrogenases. Characterized members so far as
3-hydroxybutyrate dehydrogenases and are found in
species that accumulate ester polmers called
polyhydroxyalkanoic acids (PHAs) under certain
conditions. Several members of the family are from
species not known to accumulate PHAs, including
Oceanobacillus iheyensis and Bacillus subtilis. However,
polymer formation is not required for there be a role
for 3-hydroxybutyrate dehydrogenase; it may be members
of this family have the same function in those species.
Length = 255
Score = 29.6 bits (67), Expect = 0.25
Identities = 15/67 (22%), Positives = 30/67 (44%)
Query: 19 MQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQ 78
+ + + + S F + L M G G + ++S GL P ++ A++ +
Sbjct: 99 PEDWDRIIAVMLTSAFHTIRAALPHMKKQGWGRIINIASAHGLVASPFKSAYVAAKHGLI 158
Query: 79 GLSEALA 85
GL++ LA
Sbjct: 159 GLTKVLA 165
>gnl|CDD|187649 cd08945, PKR_SDR_c, Polyketide ketoreductase, classical (c) SDR.
Polyketide ketoreductase (KR) is a classical SDR with a
characteristic NAD-binding pattern and active site
tetrad. Aromatic polyketides include various aromatic
compounds of pharmaceutical interest. Polyketide KR,
part of the type II polyketide synthase (PKS) complex,
is comprised of stand-alone domains that resemble the
domains found in fatty acid synthase and multidomain
type I PKS. SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 258
Score = 29.8 bits (67), Expect = 0.26
Identities = 15/45 (33%), Positives = 23/45 (51%)
Query: 44 MLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQL 88
ML G G + ++S G G H +AS+ V G ++AL +L
Sbjct: 128 MLERGTGRIINIASTGGKQGVVHAAPYSASKHGVVGFTKALGLEL 172
>gnl|CDD|235853 PRK06701, PRK06701, short chain dehydrogenase; Provisional.
Length = 290
Score = 29.6 bits (67), Expect = 0.27
Identities = 20/79 (25%), Positives = 41/79 (51%), Gaps = 2/79 (2%)
Query: 13 ALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAA 72
+L D + +++ +TF+ ++ S+F + + L P L G + S+ G G +A
Sbjct: 140 SLEDITAEQLDKTFKTNIYSYFHMTKAAL-PHLKQG-SAIINTGSITGYEGNETLIDYSA 197
Query: 73 SQFAVQGLSEALAQQLWKK 91
++ A+ + +LAQ L +K
Sbjct: 198 TKGAIHAFTRSLAQSLVQK 216
>gnl|CDD|187610 cd05352, MDH-like_SDR_c, mannitol dehydrogenase (MDH)-like,
classical (c) SDRs. NADP-mannitol dehydrogenase
catalyzes the conversion of fructose to mannitol, an
acyclic 6-carbon sugar. MDH is a tetrameric member of
the SDR family. This subgroup also includes various
other tetrameric SDRs, including Pichia stipitis
D-arabinitol dehydrogenase (aka polyol dehydrogenase),
Candida albicans Sou1p, a sorbose reductase, and Candida
parapsilosis (S)-specific carbonyl reductase (SCR, aka
S-specific alcohol dehydrogenase) which catalyzes the
enantioselective reduction of 2-hydroxyacetophenone into
(S)-1-phenyl-1,2-ethanediol. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser).
Length = 252
Score = 29.6 bits (67), Expect = 0.28
Identities = 20/97 (20%), Positives = 46/97 (47%), Gaps = 3/97 (3%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG- 60
+I G++ LD + ++ + ++++ F + G+G + +S++G
Sbjct: 90 LIANAGITVHKPALDYTYEQWNKVIDVNLNGVFNCAQAAAKIFKKQGKGSLIITASMSGT 149
Query: 61 LTGQPHHTSM-AASQFAVQGLSEALAQQLWKKPNVHV 96
+ +P + AS+ AV L+++LA + W K + V
Sbjct: 150 IVNRPQPQAAYNASKAAVIHLAKSLAVE-WAKYFIRV 185
>gnl|CDD|187641 cd08936, CR_SDR_c, Porcine peroxisomal carbonyl reductase like,
classical (c) SDR. This subgroup contains porcine
peroxisomal carbonyl reductase and similar proteins. The
porcine enzyme efficiently reduces retinals. This
subgroup also includes human dehydrogenase/reductase
(SDR family) member 4 (DHRS4), and human DHRS4L1. DHRS4
is a peroxisomal enzyme with 3beta-hydroxysteroid
dehydrogenase activity; it catalyzes the reduction of
3-keto-C19/C21-steroids into 3beta-hydroxysteroids more
efficiently than it does the retinal reduction. The
human DHRS4 gene cluster contains DHRS4, DHRS4L2 and
DHRS4L1. DHRS4L2 and DHRS4L1 are paralogs of DHRS4,
DHRS4L2 being the most recent member. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 256
Score = 29.4 bits (66), Expect = 0.34
Identities = 19/75 (25%), Positives = 36/75 (48%)
Query: 14 LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAAS 73
+LD + + + +++V + + + + M G G V +SSVA P S
Sbjct: 104 ILDSTEEVWDKILDVNVKATALMTKAVVPEMEKRGGGSVVIVSSVAAFHPFPGLGPYNVS 163
Query: 74 QFAVQGLSEALAQQL 88
+ A+ GL++ LA +L
Sbjct: 164 KTALLGLTKNLAPEL 178
>gnl|CDD|168204 PRK05717, PRK05717, oxidoreductase; Validated.
Length = 255
Score = 29.5 bits (66), Expect = 0.36
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 2/64 (3%)
Query: 36 LLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVH 95
LL + P L + G V L+S +P + AAS+ + L+ ALA L P +
Sbjct: 123 LLAKHCAPYLRAHNGAIVNLASTRARQSEPDTEAYAASKGGLLALTHALAISL--GPEIR 180
Query: 96 VTLV 99
V V
Sbjct: 181 VNAV 184
>gnl|CDD|187628 cd05370, SDR_c2, classical (c) SDR, subgroup 2. Short-chain
dehydrogenases/reductases (SDRs, aka Tyrosine-dependent
oxidoreductases) are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 228
Score = 29.2 bits (66), Expect = 0.37
Identities = 26/117 (22%), Positives = 46/117 (39%), Gaps = 5/117 (4%)
Query: 1 MVIHCCGLSSPHALLD--RSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSV 58
++I+ G+ P L D + K + +++ L++ FL + V +SS
Sbjct: 81 ILINNAGIQRPIDLRDPASDLDKADTEIDTNLIGPIRLIKAFLPHLKKQPEATIVNVSSG 140
Query: 59 AGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPFLLSADLKSNIR 115
+ A++ A+ + AL QL K V V V I P + +L R
Sbjct: 141 LAFVPMAANPVYCATKAALHSYTLALRHQL-KDTGVEV--VEIVPPAVDTELHEERR 194
>gnl|CDD|187629 cd05371, HSD10-like_SDR_c, 17hydroxysteroid dehydrogenase type 10
(HSD10)-like, classical (c) SDRs. HSD10, also known as
amyloid-peptide-binding alcohol dehydrogenase (ABAD),
was previously identified as a L-3-hydroxyacyl-CoA
dehydrogenase, HADH2. In fatty acid metabolism, HADH2
catalyzes the third step of beta-oxidation, the
conversion of a hydroxyl to a keto group in the
NAD-dependent oxidation of L-3-hydroxyacyl CoA. In
addition to alcohol dehydrogenase and HADH2 activites,
HSD10 has steroid dehydrogenase activity. Although the
mechanism is unclear, HSD10 is implicated in the
formation of amyloid beta-petide in the brain (which is
linked to the development of Alzheimer's disease).
Although HSD10 is normally concentrated in the
mitochondria, in the presence of amyloid beta-peptide it
translocates into the plasma membrane, where it's action
may generate cytotoxic aldehydes and may lower estrogen
levels through its use of 17-beta-estradiol as a
substrate. HSD10 is a member of the SRD family, but
differs from other SDRs by the presence of two
insertions of unknown function. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 252
Score = 28.8 bits (65), Expect = 0.52
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 49 RGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQL 88
RG + +SVA GQ + +AS+ + G++ +A+ L
Sbjct: 138 RGVIINTASVAAFEGQIGQAAYSASKGGIVGMTLPIARDL 177
>gnl|CDD|235962 PRK07201, PRK07201, short chain dehydrogenase; Provisional.
Length = 657
Score = 28.8 bits (65), Expect = 0.58
Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 4/64 (6%)
Query: 40 FLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKK----PNVH 95
L M GH V +SS+ T P ++ AS+ A+ S+ A + +H
Sbjct: 492 LLPHMRERRFGHVVNVSSIGVQTNAPRFSAYVASKAALDAFSDVAASETLSDGITFTTIH 551
Query: 96 VTLV 99
+ LV
Sbjct: 552 MPLV 555
>gnl|CDD|187584 cd05323, ADH_SDR_c_like, insect type alcohol dehydrogenase
(ADH)-like, classical (c) SDRs. This subgroup contains
insect type ADH, and 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) type I; these proteins are
classical SDRs. ADH catalyzes the NAD+-dependent
oxidation of alcohols to aldehydes/ketones. This
subgroup is distinct from the zinc-dependent alcohol
dehydrogenases of the medium chain
dehydrogenase/reductase family, and evolved in fruit
flies to allow the digestion of fermenting fruit.
15-PGDH catalyzes the NAD-dependent interconversion of
(5Z,13E)-(15S)-11alpha,15-dihydroxy-9-oxoprost-13-enoate
and (5Z,13E)-11alpha-hydroxy-9,15-dioxoprost-13-enoate,
and has a typical SDR glycine-rich NAD-binding motif,
which is not fully present in ADH. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 244
Score = 28.8 bits (65), Expect = 0.60
Identities = 20/90 (22%), Positives = 40/90 (44%), Gaps = 5/90 (5%)
Query: 1 MVIHCCGLSSPHALLD--RSMQKVKQTFEL---SVLSHFWLLEEFLTPMLSSGRGHWVTL 55
++I+ G+ + L + ++T ++ V++ +L ++ G V +
Sbjct: 80 ILINNAGILDEKSYLFAGKLPPPWEKTIDVNLTGVINTTYLALHYMDKNKGGKGGVIVNI 139
Query: 56 SSVAGLTGQPHHTSMAASQFAVQGLSEALA 85
SVAGL P +AS+ V G + +LA
Sbjct: 140 GSVAGLYPAPQFPVYSASKHGVVGFTRSLA 169
>gnl|CDD|235712 PRK06138, PRK06138, short chain dehydrogenase; Provisional.
Length = 252
Score = 28.6 bits (64), Expect = 0.66
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 35 WLLEEFLTP-MLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALA 85
+L ++ P M G G V +S L G + AS+ A+ L+ A+A
Sbjct: 117 FLWAKYAIPIMQRQGGGSIVNTASQLALAGGRGRAAYVASKGAIASLTRAMA 168
>gnl|CDD|187646 cd08942, RhlG_SDR_c, RhlG and related beta-ketoacyl reductases,
classical (c) SDRs. Pseudomonas aeruginosa RhlG is an
SDR-family beta-ketoacyl reductase involved in
Rhamnolipid biosynthesis. RhlG is similar to but
distinct from the FabG family of beta-ketoacyl-acyl
carrier protein (ACP) of type II fatty acid synthesis.
RhlG and related proteins are classical SDRs, with a
canonical active site tetrad and glycine-rich
NAD(P)-binding motif. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 250
Score = 28.6 bits (64), Expect = 0.68
Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 10/84 (11%)
Query: 26 FELSVLSHFWLLEEFLTPMLSSGR-----GHWVTLSSVAGLTGQPHHT-SMAASQFAVQG 79
+++V S F+L + L P+L + + + S+AG+ S AS+ AV
Sbjct: 110 MDINVKSVFFLTQALL-PLLRAAATAENPARVINIGSIAGIVVSGLENYSYGASKAAVHQ 168
Query: 80 LSEALAQQLWKKPNVHVTLVHIYP 103
L+ LA++L + H+T+ I P
Sbjct: 169 LTRKLAKELAGE---HITVNAIAP 189
>gnl|CDD|187617 cd05359, ChcA_like_SDR_c, 1-cyclohexenylcarbonyl_coenzyme
A_reductase (ChcA)_like, classical (c) SDRs. This
subgroup contains classical SDR proteins, including
members identified as 1-cyclohexenylcarbonyl coenzyme A
reductase. ChcA of Streptomyces collinus is implicated
in the final reduction step of shikimic acid to
ansatrienin. ChcA shows sequence similarity to the SDR
family of NAD-binding proteins, but it lacks the
conserved Tyr of the characteristic catalytic site. This
subgroup also contains the NADH-dependent
enoyl-[acyl-carrier-protein(ACP)] reductase FabL from
Bacillus subtilis. This enzyme participates in bacterial
fatty acid synthesis, in type II fatty-acid synthases
and catalyzes the last step in each elongation cycle.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser). Some SDR family
members, including 17 beta-hydroxysteroid dehydrogenase
contain an additional helix-turn-helix motif that is not
generally found among SDRs.
Length = 242
Score = 28.5 bits (64), Expect = 0.69
Identities = 12/55 (21%), Positives = 26/55 (47%)
Query: 34 FWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQL 88
++ M G G V +SS+ + P++ ++ ++ A++ L LA +L
Sbjct: 112 VHCAQQAAKLMRERGGGRIVAISSLGSIRALPNYLAVGTAKAALEALVRYLAVEL 166
>gnl|CDD|224446 COG1529, CoxL, Aerobic-type carbon monoxide dehydrogenase, large
subunit CoxL/CutL homologs [Energy production and
conversion].
Length = 731
Score = 28.5 bits (64), Expect = 0.73
Identities = 14/48 (29%), Positives = 19/48 (39%), Gaps = 11/48 (22%)
Query: 53 VTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVH 100
VT+ + A GQ T +A Q +E L P V +VH
Sbjct: 456 VTVRTGATDIGQGTDTVLA------QIAAEELG-----IPPDDVEVVH 492
>gnl|CDD|183772 PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate
dehydrogenase; Provisional.
Length = 260
Score = 28.4 bits (64), Expect = 0.87
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 41 LTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALA 85
L ML+ G G V +SS+A T + +A++ V L+ +LA
Sbjct: 128 LPHMLAQGGGAIVNVSSIA--TRGINRVPYSAAKGGVNALTASLA 170
>gnl|CDD|235794 PRK06398, PRK06398, aldose dehydrogenase; Validated.
Length = 258
Score = 28.3 bits (63), Expect = 0.99
Identities = 16/79 (20%), Positives = 35/79 (44%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPH 66
G+ S A+ + + ++V F + + + ML +G + ++SV +
Sbjct: 81 GIESYGAIHAVEEDEWDRIINVNVNGIFLMSKYTIPYMLKQDKGVIINIASVQSFAVTRN 140
Query: 67 HTSMAASQFAVQGLSEALA 85
+ S+ AV GL+ ++A
Sbjct: 141 AAAYVTSKHAVLGLTRSIA 159
>gnl|CDD|181159 PRK07890, PRK07890, short chain dehydrogenase; Provisional.
Length = 258
Score = 28.0 bits (63), Expect = 1.1
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 1/75 (1%)
Query: 14 LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAAS 73
L D + EL+VL L + F TP L+ G V ++S+ QP + + +
Sbjct: 99 LADADFAHWRAVIELNVLGTLRLTQAF-TPALAESGGSIVMINSMVLRHSQPKYGAYKMA 157
Query: 74 QFAVQGLSEALAQQL 88
+ A+ S++LA +L
Sbjct: 158 KGALLAASQSLATEL 172
>gnl|CDD|187616 cd05358, GlcDH_SDR_c, glucose 1 dehydrogenase (GlcDH), classical
(c) SDRs. GlcDH, is a tetrameric member of the SDR
family, it catalyzes the NAD(P)-dependent oxidation of
beta-D-glucose to D-glucono-delta-lactone. GlcDH has a
typical NAD-binding site glycine-rich pattern as well as
the canonical active site tetrad (YXXXK motif plus
upstream Ser and Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 253
Score = 27.7 bits (62), Expect = 1.1
Identities = 18/83 (21%), Positives = 38/83 (45%), Gaps = 1/83 (1%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGR-GHWVTLSSVAGLTGQP 65
GL + + +++ + ++++ F E + S G + +SSV P
Sbjct: 90 GLQGDASSHEMTLEDWNKVIDVNLTGQFLCAREAIKRFRKSKIKGKIINMSSVHEKIPWP 149
Query: 66 HHTSMAASQFAVQGLSEALAQQL 88
H + AAS+ V+ +++ LAQ+
Sbjct: 150 GHVNYAASKGGVKMMTKTLAQEY 172
>gnl|CDD|187662 cd09761, A3DFK9-like_SDR_c, Clostridium thermocellum A3DFK9-like, a
putative carbohydrate or polyalcohol metabolizing SDR,
classical (c) SDRs. This subgroup includes a putative
carbohydrate or polyalcohol metabolizing SDR (A3DFK9)
from Clostridium thermocellum. Its members have a
TGXXXGXG classical-SDR glycine-rich NAD-binding motif,
and some have a canonical SDR active site tetrad (A3DFK9
lacks the upstream Asn). SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 242
Score = 27.5 bits (61), Expect = 1.6
Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 5/88 (5%)
Query: 10 SPHALLDRSMQKVKQTFELSV-LSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHT 68
S L +++ + LSV L+ + L + L +G + ++S +P
Sbjct: 87 SKGILSSLLLEEWDRI--LSVNLTGPYELSRYCRDELIKNKGRIINIASTRAFQSEPDSE 144
Query: 69 SMAASQFAVQGLSEALAQQLWKKPNVHV 96
+ AAS+ + L+ ALA L P++ V
Sbjct: 145 AYAASKGGLVALTHALAMSL--GPDIRV 170
>gnl|CDD|180408 PRK06114, PRK06114, short chain dehydrogenase; Provisional.
Length = 254
Score = 27.1 bits (60), Expect = 1.9
Identities = 17/88 (19%), Positives = 43/88 (48%), Gaps = 8/88 (9%)
Query: 3 IHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLT 62
++ G+++ + + ++ + ++++ F + ML +G G V ++S++G+
Sbjct: 91 VNAAGIANANPAEEMEEEQWQTVMDINLTGVFLSCQAEARAMLENGGGSIVNIASMSGII 150
Query: 63 -----GQPHHTSMAASQFAVQGLSEALA 85
Q H+ + S+ V LS++LA
Sbjct: 151 VNRGLLQAHYNA---SKAGVIHLSKSLA 175
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 27.1 bits (61), Expect = 2.0
Identities = 7/39 (17%), Positives = 21/39 (53%)
Query: 1 MVIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEE 39
+V+ G++ + + S + +++F+++ HF + E
Sbjct: 501 IVVSNAGIAISGPIEETSDEDWRRSFDVNATGHFLVARE 539
>gnl|CDD|187621 cd05363, SDH_SDR_c, Sorbitol dehydrogenase (SDH), classical (c)
SDR. This bacterial subgroup includes Rhodobacter
sphaeroides SDH, and other SDHs. SDH preferentially
interconverts D-sorbitol (D-glucitol) and D-fructose,
but also interconverts L-iditol/L-sorbose and
galactitol/D-tagatose. SDH is NAD-dependent and is a
dimeric member of the SDR family. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRS are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 254
Score = 27.2 bits (60), Expect = 2.3
Identities = 16/76 (21%), Positives = 38/76 (50%), Gaps = 1/76 (1%)
Query: 14 LLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGR-GHWVTLSSVAGLTGQPHHTSMAA 72
++D + + + F ++V ++++ M++ GR G + ++S AG G+ A
Sbjct: 93 IVDITRESYDRLFAINVSGTLFMMQAVARAMIAQGRGGKIINMASQAGRRGEALVGVYCA 152
Query: 73 SQFAVQGLSEALAQQL 88
++ AV L+++ L
Sbjct: 153 TKAAVISLTQSAGLNL 168
>gnl|CDD|235813 PRK06482, PRK06482, short chain dehydrogenase; Provisional.
Length = 276
Score = 26.6 bits (59), Expect = 3.0
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 48 GRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQ 87
G G V +SS G P + A+++ ++G EA+AQ+
Sbjct: 126 GGGRIVQVSSEGGQIAYPGFSLYHATKWGIEGFVEAVAQE 165
>gnl|CDD|183494 PRK12390, PRK12390, 1-aminocyclopropane-1-carboxylate deaminase;
Provisional.
Length = 337
Score = 26.5 bits (59), Expect = 3.4
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 39 EFLTP-MLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLW 89
E+L P L+ G TL S+ G+ Q +HT A+ A G+ L Q+ W
Sbjct: 56 EYLVPDALAQGAD---TLVSIGGV--QSNHTRQVAAVAAHLGMKCVLVQENW 102
>gnl|CDD|226320 COG3798, COG3798, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 75
Score = 25.2 bits (55), Expect = 4.2
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 47 SGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSE 82
SG+ H++ LS+V + S A Q LSE
Sbjct: 39 SGKHHYIPLSAVEHVDEHKVLLS-VHEDVAKQMLSE 73
>gnl|CDD|181721 PRK09242, PRK09242, tropinone reductase; Provisional.
Length = 257
Score = 26.2 bits (58), Expect = 4.3
Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 6/65 (9%)
Query: 13 ALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLS-SGRGHWVTLSSVAGL----TGQPHH 67
A +D + + + FE ++ S F L + P+L V + SV+GL +G P+
Sbjct: 103 AAIDYTEDEWRGIFETNLFSAFEL-SRYAHPLLKQHASSAIVNIGSVSGLTHVRSGAPYG 161
Query: 68 TSMAA 72
+ AA
Sbjct: 162 MTKAA 166
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 26.0 bits (57), Expect = 4.9
Identities = 23/103 (22%), Positives = 43/103 (41%), Gaps = 3/103 (2%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTGQPH 66
G P ++ SM+ + +L + +L + M G G + +SVA P+
Sbjct: 94 GGPKPGYFMEMSMEDWEGAVKLLLYPAVYLTRALVPAMERKGFGRIIYSTSVAIKEPIPN 153
Query: 67 HTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPFLLSAD 109
+ ++ GL LA++L K +T+ I P ++ D
Sbjct: 154 IALSNVVRISMAGLVRTLAKELGPK---GITVNGIMPGIIRTD 193
>gnl|CDD|171531 PRK12481, PRK12481, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 251
Score = 26.0 bits (57), Expect = 4.9
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 50 GHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHVTLVHIYPFLLSAD 109
G + ++S+ G S AS+ AV GL+ ALA + + N++V I P ++ D
Sbjct: 136 GKIINIASMLSFQGGIRVPSYTASKSAVMGLTRALATE-LSQYNINVNA--IAPGYMATD 192
Query: 110 LKSNIR 115
+ +R
Sbjct: 193 NTAALR 198
>gnl|CDD|105866 PRK12702, PRK12702, mannosyl-3-phosphoglycerate phosphatase;
Reviewed.
Length = 302
Score = 26.2 bits (57), Expect = 5.0
Identities = 26/94 (27%), Positives = 37/94 (39%), Gaps = 27/94 (28%)
Query: 4 HCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGLTG 63
+ C L P+ L +Q+V+Q L ++ G G W T S +A TG
Sbjct: 92 YVCALGLPYPCLRHILQQVRQDSHLDLI----------------GFGDW-TASELAAATG 134
Query: 64 QPHHTSMAASQ------FAVQG----LSEALAQQ 87
P + A + F+ G L EA AQQ
Sbjct: 135 IPLEEAERAQKREYSEIFSYSGDPARLREAFAQQ 168
>gnl|CDD|187609 cd05351, XR_like_SDR_c, xylulose reductase-like, classical (c)
SDRs. Members of this subgroup include proteins
identified as L-xylulose reductase (XR) and carbonyl
reductase; they are members of the SDR family. XR,
catalyzes the NADP-dependent reduction of L-xyulose and
other sugars. Tetrameric mouse carbonyl reductase is
involved in the metabolism of biogenic and xenobiotic
carbonyl compounds. This subgroup also includes
tetrameric chicken liver D-erythrulose reductase, which
catalyzes the reduction of D-erythrulose to D-threitol.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRS are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes have a 3-glycine N-terminal NAD(P)(H)-binding
pattern (typically, TGxxxGxG in classical SDRs and
TGxxGxxG in extended SDRs), while substrate binding is
in the C-terminal region. A critical catalytic Tyr
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering), is often found in a
conserved YXXXK pattern. In addition to the Tyr and Lys,
there is often an upstream Ser (Ser-138, 15-PGDH
numbering) and/or an Asn (Asn-107, 15-PGDH numbering) or
additional Ser, contributing to the active site.
Substrates for these enzymes include sugars, steroids,
alcohols, and aromatic compounds. The standard reaction
mechanism is a proton relay involving the conserved Tyr
and Lys, as well as Asn (or Ser).
Length = 244
Score = 25.9 bits (57), Expect = 5.5
Identities = 16/83 (19%), Positives = 41/83 (49%), Gaps = 1/83 (1%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSG-RGHWVTLSSVAGLTGQP 65
++ L+ + + ++F+++V + + + M++ G G V +SS A
Sbjct: 85 AVAILQPFLEVTKEAFDRSFDVNVRAVIHVSQIVARGMIARGVPGSIVNVSSQASQRALT 144
Query: 66 HHTSMAASQFAVQGLSEALAQQL 88
+HT +++ A+ L++ +A +L
Sbjct: 145 NHTVYCSTKAALDMLTKVMALEL 167
>gnl|CDD|187606 cd05348, BphB-like_SDR_c,
cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase
(BphB)-like, classical (c) SDRs.
cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB) is
a classical SDR, it is of particular importance for its
role in the degradation of biphenyl/polychlorinated
biphenyls(PCBs); PCBs are a significant source of
environmental contamination. This subgroup also includes
Pseudomonas putida F1
cis-biphenyl-1,2-dihydrodiol-1,2-dehydrogenase (aka
cis-benzene glycol dehydrogenase, encoded by the bnzE
gene), which participates in benzene metabolism. In
addition it includes Pseudomonas sp. C18 putative
1,2-dihydroxy-1,2-dihydronaphthalene dehydrogenase (aka
dibenzothiophene dihydrodiol dehydrogenase, encoded by
the doxE gene) which participates in an upper
naphthalene catabolic pathway. SDRs are a functionally
diverse family of oxidoreductases that have a single
domain with a structurally conserved Rossmann fold
(alpha/beta folding pattern with a central beta-sheet),
an NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRs are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes catalyze a wide range of
activities including the metabolism of steroids,
cofactors, carbohydrates, lipids, aromatic compounds,
and amino acids, and act in redox sensing. Classical
SDRs have an TGXXX[AG]XG cofactor binding motif and a
YXXXK active site motif, with the Tyr residue of the
active site motif serving as a critical catalytic
residue (Tyr-151, human 15-hydroxyprostaglandin
dehydrogenase (15-PGDH) numbering). In addition to the
Tyr and Lys, there is often an upstream Ser (Ser-138,
15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH
numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Some atypical SDRs have lost catalytic activity and/or
have an unusual NAD(P)-binding motif and missing or
unusual active site residues. Reactions catalyzed within
the SDR family include isomerization, decarboxylation,
epimerization, C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 257
Score = 25.8 bits (57), Expect = 5.7
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 8/57 (14%)
Query: 43 PMLSSGRGHWVTLSSVAGLT---GQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHV 96
P L + G + S AG G P +T AS+ AV GL + LA +L P++ V
Sbjct: 127 PALYATEGSVIFTVSNAGFYPGGGGPLYT---ASKHAVVGLVKQLAYEL--APHIRV 178
>gnl|CDD|187582 cd05274, KR_FAS_SDR_x, ketoreductase (KR) and fatty acid synthase
(FAS), complex (x) SDRs. Ketoreductase, a module of the
multidomain polyketide synthase (PKS), has 2 subdomains,
each corresponding to a SDR family monomer. The
C-terminal subdomain catalyzes the NADPH-dependent
reduction of the beta-carbonyl of a polyketide to a
hydroxyl group, a step in the biosynthesis of
polyketides, such as erythromycin. The N-terminal
subdomain, an interdomain linker, is a truncated
Rossmann fold which acts to stabilizes the catalytic
subdomain. Unlike typical SDRs, the isolated domain does
not oligomerize but is composed of 2 subdomains, each
resembling an SDR monomer. The active site resembles
that of typical SDRs, except that the usual positions of
the catalytic Asn and Tyr are swapped, so that the
canonical YXXXK motif changes to YXXXN. Modular PKSs are
multifunctional structures in which the makeup
recapitulates that found in (and may have evolved from)
FAS. In some instances, such as porcine FAS, an enoyl
reductase (ER) module is inserted between the
sub-domains. Fatty acid synthesis occurs via the
stepwise elongation of a chain (which is attached to
acyl carrier protein, ACP) with 2-carbon units.
Eukaryotic systems consist of large, multifunctional
synthases (type I) while bacterial, type II systems, use
single function proteins. Fungal fatty acid synthase
uses a dodecamer of 6 alpha and 6 beta subunits. In
mammalian type FAS cycles, ketoacyl synthase forms
acetoacetyl-ACP which is reduced by the NADP-dependent
beta-KR, forming beta-hydroxyacyl-ACP, which is in turn
dehydrated by dehydratase to a beta-enoyl intermediate,
which is reduced by NADP-dependent beta-ER. Polyketide
synthesis also proceeds via the addition of 2-carbon
units as in fatty acid synthesis. The complex SDR
NADP-binding motif, GGXGXXG, is often present, but is
not strictly conserved in each instance of the module.
SDRs are a functionally diverse family of
oxidoreductases that have a single domain with a
structurally conserved Rossmann fold (alpha/beta folding
pattern with a central beta-sheet), an NAD(P)(H)-binding
region, and a structurally diverse C-terminal region.
Classical SDRs are typically about 250 residues long,
while extended SDRs are approximately 350 residues.
Sequence identity between different SDR enzymes are
typically in the 15-30% range, but the enzymes share the
Rossmann fold NAD-binding motif and characteristic
NAD-binding and catalytic sequence patterns. These
enzymes catalyze a wide range of activities including
the metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
prostaglandin dehydrogenase (PGDH) numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser (Ser-138, PGDH numbering) and/or an Asn (Asn-107,
PGDH numbering) contributing to the active site; while
substrate binding is in the C-terminal region, which
determines specificity. The standard reaction mechanism
is a 4-pro-S hydride transfer and proton relay involving
the conserved Tyr and Lys, a water molecule stabilized
by Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 375
Score = 25.8 bits (57), Expect = 6.1
Identities = 26/88 (29%), Positives = 33/88 (37%), Gaps = 10/88 (11%)
Query: 2 VIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAGL 61
VIH G+ L + + V L E LTP L +V SSVA L
Sbjct: 233 VIHAAGVLRDALLAELTPAAFAAVLAAKVAG-ALNLHE-LTPDLPLDF--FVLFSSVAAL 288
Query: 62 TGQPHHTSMA-ASQFAVQGLSEALAQQL 88
G + A A+ F +ALA Q
Sbjct: 289 LGGAGQAAYAAANAFL-----DALAAQR 311
>gnl|CDD|173869 cd08504, PBP2_OppA, The substrate-binding component of an ABC-type
oligopetide import system contains the type 2
periplasmic binding fold. This family represents the
periplasmic substrate-binding component of an
ATP-binding cassette (ABC)-type oligopeptide transport
system comprised of 5 subunits. The transport system
OppABCDEF contains two homologous integral membrane
proteins OppB and OppF that form the translocation pore;
two homologous nucleotide-binding domains OppD and OppF
that drive the transport process through binding and
hydrolysis of ATP; and the substrate-binding protein or
receptor OppA that determines the substrate specificity
of the transport system. The dipeptide (DppA) and
oligopeptide (OppA) binding proteins differ in several
ways. The DppA binds dipeptides and some tripeptides and
is involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 498
Score = 25.6 bits (57), Expect = 6.8
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 80 LSEALAQQLWKKPNVHVTLV 99
++EA+ Q K V VTL
Sbjct: 359 IAEAIQQMWKKNLGVKVTLK 378
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 25.7 bits (57), Expect = 6.8
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 36 LLEEFLTPMLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVH 95
LL + G G V +SSVAG G+ + +++ A+ L +L+K VH
Sbjct: 114 LLTLLANRFEARGSGTIVGISSVAGDRGRASNYVYGSAKAALTAFLSGLRNRLFKS-GVH 172
Query: 96 V 96
V
Sbjct: 173 V 173
>gnl|CDD|133054 cd06432, GT8_HUGT1_C_like, The C-terminal domain of HUGT1-like is
highly homologous to the GT 8 family. C-terminal
domain of glycoprotein glucosyltransferase (UGT). UGT
is a large glycoprotein whose C-terminus contains the
catalytic activity. This catalytic C-terminal domain is
highly homologous to Glycosyltransferase Family 8 (GT
8) and contains the DXD motif that coordinates donor
sugar binding, characteristic for Family 8
glycosyltransferases. GT 8 proteins are retaining
enzymes based on the relative anomeric stereochemistry
of the substrate and product in the reaction catalyzed.
The non-catalytic N-terminal portion of the human UTG1
(HUGT1) has been shown to monitor the protein folding
status and activate its glucosyltransferase activity.
Length = 248
Score = 25.4 bits (56), Expect = 6.8
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 6/22 (27%)
Query: 28 LSVLSH------FWLLEEFLTP 43
LSV+ + FW ++ FL+P
Sbjct: 21 LSVMKNTKSPVKFWFIKNFLSP 42
>gnl|CDD|180761 PRK06935, PRK06935, 2-deoxy-D-gluconate 3-dehydrogenase;
Provisional.
Length = 258
Score = 25.5 bits (56), Expect = 7.8
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 44 MLSSGRGHWVTLSSVAGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHV 96
M G G + ++S+ G + AS+ V GL++A A +L N+ V
Sbjct: 137 MAKQGSGKIINIASMLSFQGGKFVPAYTASKHGVAGLTKAFANELAAY-NIQV 188
>gnl|CDD|235110 PRK03188, PRK03188, 4-diphosphocytidyl-2-C-methyl-D-erythritol
kinase; Provisional.
Length = 300
Score = 25.6 bits (57), Expect = 7.8
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 39 EFLTPMLSSGRGHWV 53
E L P+L+ G HWV
Sbjct: 152 EQLAPVLARGTFHWV 166
>gnl|CDD|180773 PRK06949, PRK06949, short chain dehydrogenase; Provisional.
Length = 258
Score = 25.5 bits (56), Expect = 8.0
Identities = 22/98 (22%), Positives = 45/98 (45%), Gaps = 9/98 (9%)
Query: 7 GLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRG--------HWVTLSSV 58
G+S+ L+D + F+ + F++ +E M++ +G + ++SV
Sbjct: 95 GVSTTQKLVDVTPADFDFVFDTNTRGAFFVAQEVAKRMIARAKGAGNTKPGGRIINIASV 154
Query: 59 AGLTGQPHHTSMAASQFAVQGLSEALAQQLWKKPNVHV 96
AGL P S+ AV ++ A+A + W + ++V
Sbjct: 155 AGLRVLPQIGLYCMSKAAVVHMTRAMALE-WGRHGINV 191
>gnl|CDD|213929 TIGR04316, dhbA_paeA, 2,3-dihydro-2,3-dihydroxybenzoate
dehydrogenase. Members of this family are
2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase (EC
1.3.1.28), the third enzyme in the biosynthesis of
2,3-dihydroxybenzoic acid (DHB) from chorismate. The
first two enzymes are isochorismate synthase (EC
5.4.4.2) and isochorismatase (EC 3.3.2.1). Synthesis is
often followed by adenylation by the enzyme DHBA-AMP
ligase (EC 2.7.7.58) to activate (DHB) for a
non-ribosomal peptide synthetase.
Length = 250
Score = 25.3 bits (56), Expect = 8.9
Identities = 19/88 (21%), Positives = 39/88 (44%)
Query: 1 MVIHCCGLSSPHALLDRSMQKVKQTFELSVLSHFWLLEEFLTPMLSSGRGHWVTLSSVAG 60
++++ G+ A+ S + + TF ++ F + + M G VT+ S A
Sbjct: 78 VLVNVAGILRLGAIDSLSDEDWQATFAVNTFGVFNVSQAVSPRMKRRRSGAIVTVGSNAA 137
Query: 61 LTGQPHHTSMAASQFAVQGLSEALAQQL 88
+ + AAS+ A+ L++ L +L
Sbjct: 138 NVPRMGMAAYAASKAALTMLTKCLGLEL 165
>gnl|CDD|236357 PRK08945, PRK08945, putative oxoacyl-(acyl carrier protein)
reductase; Provisional.
Length = 247
Score = 25.2 bits (56), Expect = 9.2
Identities = 24/86 (27%), Positives = 38/86 (44%), Gaps = 12/86 (13%)
Query: 13 ALLDRSMQ-KVKQTFELSVLSHFWLLEEFLTP-MLSSGRGHWVTLSSVAGLTGQPHHTSM 70
+ MQ V TF +L + L P +L S V SS G G+ + +
Sbjct: 115 EVWQDVMQVNVNATF---------MLTQALLPLLLKSPAASLVFTSSSVGRQGRANWGAY 165
Query: 71 AASQFAVQGLSEALAQQLWKKPNVHV 96
A S+FA +G+ + LA + + N+ V
Sbjct: 166 AVSKFATEGMMQVLADEY-QGTNLRV 190
>gnl|CDD|180823 PRK07074, PRK07074, short chain dehydrogenase; Provisional.
Length = 257
Score = 25.1 bits (55), Expect = 9.4
Identities = 25/93 (26%), Positives = 36/93 (38%), Gaps = 23/93 (24%)
Query: 34 FWLLEEFLTPMLSSGRGHWVTLSSVAGLT--GQP----------HHTSMAASQFAVQGL- 80
+ +E L ML RG V + SV G+ G P H+T + A ++ G+
Sbjct: 113 YLCVEAVLEGMLKRSRGAVVNIGSVNGMAALGHPAYSAAKAGLIHYTKLLAVEYGRFGIR 172
Query: 81 SEALA-----QQLW-----KKPNVHVTLVHIYP 103
+ A+A Q W P V L YP
Sbjct: 173 ANAVAPGTVKTQAWEARVAANPQVFEELKKWYP 205
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.323 0.132 0.409
Gapped
Lambda K H
0.267 0.0845 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,736,993
Number of extensions: 472853
Number of successful extensions: 800
Number of sequences better than 10.0: 1
Number of HSP's gapped: 784
Number of HSP's successfully gapped: 169
Length of query: 117
Length of database: 10,937,602
Length adjustment: 80
Effective length of query: 37
Effective length of database: 7,389,282
Effective search space: 273403434
Effective search space used: 273403434
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.0 bits)